Citrus Sinensis ID: 041769

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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----
Protein Sequence
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTENDESKAKEAKEERADDAPN
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHcHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHcccEEEEEcccccccHHHHHHHHHccccEEEEEcccccHHHHHHHcccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEccccccHHHHHHHHHHHccccEEEEEcccccccccccEEEEEccccEEEEEEcccccccHHHcccccccEEEEEccccHHHHHHHHHHHcccccccHHHHHHHHHHcccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcHccccc
Coil and Loop (DISEMBL)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWkhsyflygppgtgksSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKnksilvvgdidYLTLHILLRSSCmdmhihmsyctpfRFKMLAsnyfgitehplLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTENDESKAKEAkeeraddapn
Flexible Loop (DISEMBL)
tfdtlamdsnmkqmIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIatknksilvVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVpeialrgltdvfkikqtendeskakeakeeraddapn
Low Complexity Region (SEG)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTENdeskakeakeeraddaPN
Disordered region (IsUnstruct)
**************IMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKI***********************
Disordered Region (DISOPRED)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLH*******************FRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTD***************************
Disordered Region (DISEMBL)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQT********************
Disordered Region (DISPRO)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTEN******************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTENDESKAKEAKEERADDAPN
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	204	2.2.26 [Sep-21-2011]
Q54HY8	421	Probable mitochondrial ch	yes	no	0.480	0.232	0.323	9e-11
Q9P6Q3	449	Probable mitochondrial ch	yes	no	0.578	0.262	0.275	2e-10
P32839	456	Mitochondrial chaperone B	yes	no	0.455	0.203	0.336	3e-10
Q54DY9	458	Probable mitochondrial ch	no	no	0.470	0.209	0.329	4e-10
Q7ZV60	420	Mitochondrial chaperone B	yes	no	0.475	0.230	0.285	2e-09
Q7ZTL7	419	Mitochondrial chaperone B	N/A	no	0.470	0.229	0.257	1e-07
Q9CZP5	418	Mitochondrial chaperone B	yes	no	0.475	0.232	0.255	1e-06
Q9Y276	419	Mitochondrial chaperone B	yes	no	0.475	0.231	0.244	2e-06
Q5E9H5	419	Mitochondrial chaperone B	yes	no	0.475	0.231	0.244	2e-06
Q5UPR4	314	Uncharacterized protein R	N/A	no	0.441	0.286	0.306	1e-05

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

 Score = 67.0 bits (162), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 61/99 (61%), Gaps = 1/99 (1%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           +  ++ +  ++K  +++D++ F+  + +YRN G  ++  Y LYG PG GKSSLI A+   
Sbjct: 185 SLSSVILADDLKSKLIEDIKSFITNESWYRNRGIPYRRGYLLYGEPGNGKSSLINAIAGE 244

Query: 61  LNFDVYDLELTTFK-ENMELRNMLIATKNKSILVVGDID 98
           LN D+  + L++   ++ ++ ++L     KSIL++ DID
Sbjct: 245 LNLDICIVSLSSKDIDDKQINHLLNNAPPKSILLIEDID 283

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.
Dictyostelium discoideum (taxid: 44689)

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

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 67/120 (55%), Gaps = 2/120 (1%)

Query: 2   FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL 61
             ++ ++SN+K+MI DD+  F++  ++Y   G  ++  Y LYGPPG+GK+S + A+   L
Sbjct: 207 LSSVVLESNVKKMITDDVHDFLRNSQWYDTRGIPYRRGYLLYGPPGSGKTSFLYALAGEL 266

Query: 62  NFDVYDLELTTFK-ENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYC 120
           ++D+  L L      +  L ++L     K+++++ D+D        RS  +  H ++++ 
Sbjct: 267 DYDICVLNLAEKGLTDDRLNHLLSNVPPKAVVLLEDVDS-AFQGRERSGEVGFHANVTFS 325

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

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

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

 Score = 65.5 bits (158), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/98 (33%), Positives = 62/98 (63%), Gaps = 5/98 (5%)

Query: 4   TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF 63
           ++ +DS +K+ I+DD+  F+K  ++Y + G  ++  Y LYGPPG+GK+S I A+   L++
Sbjct: 227 SVILDSGIKEGILDDVYDFMKNGKWYSDRGIPYRRGYLLYGPPGSGKTSFIQALAGELDY 286

Query: 64  DVYDLELTTFKENM---ELRNMLIATKNKSILVVGDID 98
           ++  L L+  + N+    L +++     +SIL++ DID
Sbjct: 287 NICILNLS--ENNLTDDRLNHLMNNMPERSILLLEDID 322

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 = 64.7 bits (156), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/97 (32%), Positives = 55/97 (56%), Gaps = 1/97 (1%)

Query: 3   DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN 62
            ++ +D    ++I+ D+++F+   ++Y + G  ++  Y LYGPPGTGKSS I A+   L 
Sbjct: 207 SSVILDKGKSELIIQDVKKFLNNSDWYNDRGIPYRRGYLLYGPPGTGKSSFITALAGELQ 266

Query: 63  FDVYDLELTTFKENMELRNMLIATK-NKSILVVGDID 98
             +  L L     +    N L+AT   +SI+++ DID
Sbjct: 267 LSICILNLAGKSVSDTSLNQLLATAPQRSIILLEDID 303

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 = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 56/98 (57%), Gaps = 1/98 (1%)

Query: 2   FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL 61
             ++ ++S + + I+DD++ F+   ++Y + G  ++  Y LYGPPG GKSS I A+   L
Sbjct: 188 LSSVVLESGVAERIVDDVKEFIGNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 62  NFDVYDLELTTFK-ENMELRNMLIATKNKSILVVGDID 98
            + +  + L+     +  L ++L     +SI+++ D+D
Sbjct: 248 GYSICLMSLSDRSLSDDRLNHLLSVAPQQSIILLEDVD 285

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

Danio rerio (taxid: 7955)

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

 Score = 56.6 bits (135), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 53/97 (54%), Gaps = 1/97 (1%)

Query: 3   DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN 62
            ++ ++  + + I+ D++ F++  ++Y + G  ++  Y LYGPPG GKSS I A+   L 
Sbjct: 189 SSVVLEQGISEKIVQDVKGFIENPKWYSDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 248

Query: 63  FDV-YDLELTTFKENMELRNMLIATKNKSILVVGDID 98
           + +       +   +  L ++L     +SI+++ D+D
Sbjct: 249 YSICLMSLSDSSLSDDRLNHLLSVAPQQSIILLEDVD 285

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 = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/98 (25%), Positives = 49/98 (50%), Gaps = 1/98 (1%)

Query: 2   FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL 61
            D++ +   +   I+ D+  F+   ++Y + G  ++  Y LYGPPG GKSS I A+   L
Sbjct: 188 LDSVVLQQGLADRIVKDIREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 62  NFDV-YDLELTTFKENMELRNMLIATKNKSILVVGDID 98
              +       +   +  L ++L     +S++++ D+D
Sbjct: 248 EHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLEDVD 285

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

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/98 (24%), Positives = 50/98 (51%), Gaps = 1/98 (1%)

Query: 2   FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL 61
            +++ +   +   I+ D++ F+   ++Y + G  ++  Y LYGPPG GKSS I A+   L
Sbjct: 188 LNSVVLQQGLADRIVRDVQEFIDNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 62  NFDV-YDLELTTFKENMELRNMLIATKNKSILVVGDID 98
              +       +   +  L ++L     +S++++ D+D
Sbjct: 248 EHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLEDVD 285

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)

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

 Score = 52.4 bits (124), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/98 (24%), Positives = 51/98 (52%), Gaps = 1/98 (1%)

Query: 2   FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL 61
            +++ ++  + + I+ D+  F+   ++Y + G  ++  Y LYGPPG GKSS I A+   L
Sbjct: 188 LNSVVLEQGVTERIVRDIREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 62  NFDV-YDLELTTFKENMELRNMLIATKNKSILVVGDID 98
              +       +   +  L ++L     +S++++ D+D
Sbjct: 248 QHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLEDVD 285

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|Q5UPR4|YR776_MIMIV Uncharacterized protein R776 OS=Acanthamoeba polyphaga mimivirus GN=MIMI_R776 PE=4 SV=1

 Score = 49.7 bits (117), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/98 (30%), Positives = 56/98 (57%), Gaps = 8/98 (8%)

Query: 7   MDSNMK---QMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF 63
           +DSN+    + ++ D++ F++ ++ YR +G  ++    LYG  G GK+ LI+ ++N    
Sbjct: 168 LDSNLTTEMRSVLKDVDVFMRNEDTYRELGANYRRGMLLYGESGCGKTGLISIISNKYGM 227

Query: 64  DVYDLELTTFKENME---LRNMLIATKNKSILVVGDID 98
           D Y L L +  ++M    L ++    K +SILV+ +ID
Sbjct: 228 DSYILNLNS--KDMSDSVLISLASNVKARSILVIEEID 263

Acanthamoeba polyphaga (taxid: 5757)

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	204
225428414	488	PREDICTED: ATP-dependent zinc metallopro	0.980	0.409	0.505	3e-58
255543747	501	ATP binding protein, putative [Ricinus c	0.901	0.367	0.520	4e-58
225428416	494	PREDICTED: ATP-dependent zinc metallopro	0.980	0.404	0.498	2e-57
255561036	440	ATP binding protein, putative [Ricinus c	0.955	0.443	0.484	4e-56
21592769	534	BCS1 protein-like protein [Arabidopsis t	0.965	0.368	0.484	2e-55
13877697	534	putative mitochondrial protein [Arabidop	0.965	0.368	0.484	2e-55
30693378	576	cytochrome BC1 synthesis [Arabidopsis th	0.965	0.342	0.484	2e-55
118486313	539	unknown [Populus trichocarpa]	1.0	0.378	0.469	2e-55
224105359	457	predicted protein [Populus trichocarpa]	0.892	0.398	0.506	4e-55
357518221	500	Mitochondrial chaperone BCS1 [Medicago t	0.980	0.4	0.464	2e-54

>gi|225428414|ref|XP_002283754.1| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like isoform 1 [Vitis vinifera]

 Score =  230 bits (586), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 130/257 (50%), Positives = 159/257 (61%), Gaps = 57/257 (22%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLAMDS +K+ +M+DLERFV+RK FYR VGKAWK  Y L+GPPGTGKSSLIAAM NY
Sbjct: 209 TFDTLAMDSELKRTLMNDLERFVRRKGFYRKVGKAWKRGYLLFGPPGTGKSSLIAAMANY 268

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID-------------------YLT 101
           LNFD+YDLELT  + N ELR +LI+T N+SILVV DID                   Y T
Sbjct: 269 LNFDIYDLELTDLRCNSELRKLLISTANRSILVVEDIDCSLELQDRLAQARMMNPHRYQT 328

Query: 102 LHILLR----------SSC-------------------------MDMHIHMSYCTPFRFK 126
             + L           SSC                         MDMHI+MSYCTP  FK
Sbjct: 329 SQVTLSGLLNFIDGLWSSCGDERIIVFTTNHKDKLDPALLRPGRMDMHINMSYCTPCGFK 388

Query: 127 MLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTEN 186
           MLASNY  IT HPL  E+++LI +A VT A+V EQLM+++ P+I L GL   F +++ E+
Sbjct: 389 MLASNYLEITNHPLFPEVEDLILEAKVTPAEVGEQLMKSEEPDITLEGLIR-FLVEKKES 447

Query: 187 DESKAKEAKEE--RADD 201
           D +KA+EA+ E  RA D
Sbjct: 448 DAAKAREAELEAARASD 464

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255543747|ref|XP_002512936.1| ATP binding protein, putative [Ricinus communis] gi|223547947|gb|EEF49439.1| ATP binding protein, putative [Ricinus communis]

 Score =  229 bits (585), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 126/242 (52%), Positives = 150/242 (61%), Gaps = 58/242 (23%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLAMD ++K++IM+DLERFVKRKEFY+ VGKAWK  Y L+GPPGTGKSSLIAAM NY
Sbjct: 218 TFDTLAMDMDVKRVIMEDLERFVKRKEFYKRVGKAWKRGYLLFGPPGTGKSSLIAAMANY 277

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           L FD+YDLELT  + N +LR +LI+T NKSILVV DID                      
Sbjct: 278 LKFDIYDLELTDLRTNSDLRRLLISTGNKSILVVEDIDCSIELQNRITEARALNARQGHG 337

Query: 99  -----YLTLHILLR------SSC-------------------------MDMHIHMSYCTP 122
                 +TL  LL       SSC                         MD+HIHMSYCTP
Sbjct: 338 YVRDNQVTLSGLLNFVDGLWSSCGDERVIVFTTNHKEKLDPALLRPGRMDVHIHMSYCTP 397

Query: 123 FRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIK 182
             FKMLA NY GITEHPL  EI+E+IE   VT A++ EQLM+++ PE+ALRGLT+  + K
Sbjct: 398 CGFKMLAFNYLGITEHPLFLEIEEMIEITKVTPAEIGEQLMKSEEPEVALRGLTEFLEHK 457

Query: 183 QT 184
            T
Sbjct: 458 GT 459

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428416|ref|XP_002283761.1| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like isoform 2 [Vitis vinifera]

 Score =  227 bits (579), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 131/263 (49%), Positives = 160/263 (60%), Gaps = 63/263 (23%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLAMDS +K+ +M+DLERFV+RK FYR VGKAWK  Y L+GPPGTGKSSLIAAM NY
Sbjct: 209 TFDTLAMDSELKRTLMNDLERFVRRKGFYRKVGKAWKRGYLLFGPPGTGKSSLIAAMANY 268

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           LNFD+YDLELT  + N ELR +LI+T N+SILVV DID                      
Sbjct: 269 LNFDIYDLELTDLRCNSELRKLLISTANRSILVVEDIDCSLELQDRLAQARMMNPHRYQT 328

Query: 99  -------YLTLHILLR------SSC-------------------------MDMHIHMSYC 120
                   +TL  LL       SSC                         MDMHI+MSYC
Sbjct: 329 SQVHLSKSVTLSGLLNFIDGLWSSCGDERIIVFTTNHKDKLDPALLRPGRMDMHINMSYC 388

Query: 121 TPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFK 180
           TP  FKMLASNY  IT HPL  E+++LI +A VT A+V EQLM+++ P+I L GL   F 
Sbjct: 389 TPCGFKMLASNYLEITNHPLFPEVEDLILEAKVTPAEVGEQLMKSEEPDITLEGLIR-FL 447

Query: 181 IKQTENDESKAKEAKEE--RADD 201
           +++ E+D +KA+EA+ E  RA D
Sbjct: 448 VEKKESDAAKAREAELEAARASD 470

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561036|ref|XP_002521530.1| ATP binding protein, putative [Ricinus communis] gi|223539208|gb|EEF40801.1| ATP binding protein, putative [Ricinus communis]

 Score =  223 bits (567), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 110/227 (48%), Positives = 147/227 (64%), Gaps = 32/227 (14%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF TLAMD  +K+M++DDL+RF++RKEFY+ VG+AWK  Y LYGPPGTGKSSLIAAM NY
Sbjct: 209 TFQTLAMDPEVKKMVVDDLDRFLQRKEFYKKVGRAWKRGYLLYGPPGTGKSSLIAAMANY 268

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDY--------------------L 100
           L F++YDL+L +   N EL+ +L++T N+SILV+ DID                     +
Sbjct: 269 LRFNIYDLDLASVSSNSELKRILLSTTNRSILVIEDIDCNKEARDRQNIADEYDPSISKM 328

Query: 101 TLHI------------LLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELI 148
           TL +            LLR   MDMHIHMSYC+P+ FK LASNY G+++HPL  EI+ LI
Sbjct: 329 TLSVFTTNHKDRLDPALLRPGRMDMHIHMSYCSPYGFKTLASNYLGVSDHPLFGEIEALI 388

Query: 149 EKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQTENDESKAKEAK 195
           E + ++ A V E+LM+N   ++AL GL    K K+ E  E K ++ K
Sbjct: 389 ESSEISPAQVAEELMKNDDADVALEGLIQFIKRKKMEGTEIKDEKTK 435

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592769|gb|AAM64718.1| BCS1 protein-like protein [Arabidopsis thaliana]

 Score =  221 bits (562), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 123/254 (48%), Positives = 149/254 (58%), Gaps = 57/254 (22%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF TLAMDS++K  +M+DL++FVKR++FY+ VGKAWK  Y LYGPPGTGKSSLIAAM N+
Sbjct: 221 TFKTLAMDSDVKTSVMEDLDKFVKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANH 280

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           LNFD+YDLELT    N ELR +LIAT N+SIL+V DID                      
Sbjct: 281 LNFDIYDLELTAVNNNSELRRLLIATANRSILIVEDIDCSLELKDRTSDEPPRESDDIED 340

Query: 99  ----YLTLHILLR------SSC-------------------------MDMHIHMSYCTPF 123
                +TL  LL       SSC                         MDMHIHMSYCTP 
Sbjct: 341 PRYKKVTLSGLLNFIDGLWSSCGDERIIIFTTNYKEKLDAALLRPGRMDMHIHMSYCTPS 400

Query: 124 RFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQ 183
            FK LA NY  I EH L ++I+E IE   VT A+V EQLMRN   +  L GL +  K+K+
Sbjct: 401 TFKALALNYLEIKEHRLFSKIEEGIEATEVTPAEVAEQLMRNDSVDKVLEGLIEFLKVKK 460

Query: 184 TENDESKAKEAKEE 197
            EN++ KAK  K+E
Sbjct: 461 IENEQDKAKTEKQE 474

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|13877697|gb|AAK43926.1|AF370607_1 putative mitochondrial protein [Arabidopsis thaliana] gi|4835244|emb|CAB42922.1| putative mitochondrial protein [Arabidopsis thaliana] gi|20856863|gb|AAM26687.1| AT3g50930/F18B3_210 [Arabidopsis thaliana]

 Score =  221 bits (562), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 123/254 (48%), Positives = 149/254 (58%), Gaps = 57/254 (22%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF TLAMDS++K  +M+DL++FVKR++FY+ VGKAWK  Y LYGPPGTGKSSLIAAM N+
Sbjct: 221 TFKTLAMDSDVKTSVMEDLDKFVKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANH 280

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           LNFD+YDLELT    N ELR +LIAT N+SIL+V DID                      
Sbjct: 281 LNFDIYDLELTAVNNNSELRRLLIATANRSILIVEDIDCSLELKDRTSDEPPRESDDIED 340

Query: 99  ----YLTLHILLR------SSC-------------------------MDMHIHMSYCTPF 123
                +TL  LL       SSC                         MDMHIHMSYCTP 
Sbjct: 341 PRYKKVTLSGLLNFIDGLWSSCGDERIIIFTTNYKEKLDAALLRPGRMDMHIHMSYCTPS 400

Query: 124 RFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQ 183
            FK LA NY  I EH L ++I+E IE   VT A+V EQLMRN   +  L GL +  K+K+
Sbjct: 401 TFKALALNYLEIKEHRLFSKIEEGIEATEVTPAEVAEQLMRNDSVDKVLEGLIEFLKVKK 460

Query: 184 TENDESKAKEAKEE 197
            EN++ KAK  K+E
Sbjct: 461 IENEQDKAKTEKQE 474

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30693378|ref|NP_190662.2| cytochrome BC1 synthesis [Arabidopsis thaliana] gi|18086343|gb|AAL57634.1| AT3g50930/F18B3_210 [Arabidopsis thaliana] gi|27363216|gb|AAO11527.1| At3g50930/F18B3_210 [Arabidopsis thaliana] gi|332645207|gb|AEE78728.1| cytochrome BC1 synthesis [Arabidopsis thaliana]

 Score =  221 bits (562), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 123/254 (48%), Positives = 149/254 (58%), Gaps = 57/254 (22%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF TLAMDS++K  +M+DL++FVKR++FY+ VGKAWK  Y LYGPPGTGKSSLIAAM N+
Sbjct: 263 TFKTLAMDSDVKTSVMEDLDKFVKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANH 322

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           LNFD+YDLELT    N ELR +LIAT N+SIL+V DID                      
Sbjct: 323 LNFDIYDLELTAVNNNSELRRLLIATANRSILIVEDIDCSLELKDRTSDEPPRESDDIED 382

Query: 99  ----YLTLHILLR------SSC-------------------------MDMHIHMSYCTPF 123
                +TL  LL       SSC                         MDMHIHMSYCTP 
Sbjct: 383 PRYKKVTLSGLLNFIDGLWSSCGDERIIIFTTNYKEKLDAALLRPGRMDMHIHMSYCTPS 442

Query: 124 RFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQ 183
            FK LA NY  I EH L ++I+E IE   VT A+V EQLMRN   +  L GL +  K+K+
Sbjct: 443 TFKALALNYLEIKEHRLFSKIEEGIEATEVTPAEVAEQLMRNDSVDKVLEGLIEFLKVKK 502

Query: 184 TENDESKAKEAKEE 197
            EN++ KAK  K+E
Sbjct: 503 IENEQDKAKTEKQE 516

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118486313|gb|ABK94998.1| unknown [Populus trichocarpa]

 Score =  220 bits (561), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 129/275 (46%), Positives = 154/275 (56%), Gaps = 71/275 (25%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLAMD   K++IM+DLERFVKR+EFYR VGKAWK  Y L+GPPGTGKSSLIAA+ NY
Sbjct: 218 TFDTLAMDMEGKRVIMEDLERFVKRREFYRRVGKAWKRGYLLFGPPGTGKSSLIAAIANY 277

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           L FD+YDLELT  + N ELRN+LI+T+NKS+LVV DID                      
Sbjct: 278 LKFDIYDLELTDLRTNSELRNLLISTENKSVLVVEDIDCSIELQDRLAQARAMMPSRHHP 337

Query: 99  --------YLTLHILLR------SSC-------------------------MDMHIHMSY 119
                    +TL  LL       SSC                         MD+HIHMSY
Sbjct: 338 PYNQANQYQVTLSGLLNFVDGLWSSCGDERIIIFTTNHKERLDPALLRPGRMDVHIHMSY 397

Query: 120 CTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVF 179
           CTP  FK+LASNY G TEHPL   ++ LIEKA VT A+V EQL+R + PE A+ GL +  
Sbjct: 398 CTPCGFKLLASNYLGFTEHPLFPCVEALIEKARVTPAEVGEQLLRYEEPESAITGLIEFL 457

Query: 180 KIK----------QTENDESKAKEAKEERADDAPN 204
           + K          +  N ES   E K  +  D  N
Sbjct: 458 EDKSERLKREDGNKDSNGESGTSEGKLAQELDGNN 492

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224105359|ref|XP_002313783.1| predicted protein [Populus trichocarpa] gi|222850191|gb|EEE87738.1| predicted protein [Populus trichocarpa]

 Score =  219 bits (559), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 122/241 (50%), Positives = 145/241 (60%), Gaps = 59/241 (24%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLAMD   K++IM+DLERFVKR+EFYR VGKAWK  Y L+GPPGTGKSSLIAA+ NY
Sbjct: 215 TFDTLAMDMEGKRVIMEDLERFVKRREFYRRVGKAWKRGYLLFGPPGTGKSSLIAAIANY 274

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           L FD+YDLELT  + N ELRN+LI+T+NKS+LVV DID                      
Sbjct: 275 LKFDIYDLELTDLRTNSELRNLLISTENKSVLVVEDIDCSIELQDRLAQARAMMPSRHHP 334

Query: 99  ------YLTLHILLR------SSC-------------------------MDMHIHMSYCT 121
                  +TL  LL       SSC                         MD+HIHMSYCT
Sbjct: 335 PYNQANQVTLSGLLNFVDGLWSSCGDERIIIFTTNHKERLDPALLRPGRMDVHIHMSYCT 394

Query: 122 PFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKI 181
           P  FK+LASNY G TEHPL   ++ LIEKA VT A+V EQL+R + PE A+ GL +  + 
Sbjct: 395 PCGFKLLASNYLGFTEHPLFPCVEALIEKARVTPAEVGEQLLRYEEPESAITGLIEFLED 454

Query: 182 K 182
           K
Sbjct: 455 K 455

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357518221|ref|XP_003629399.1| Mitochondrial chaperone BCS1 [Medicago truncatula] gi|355523421|gb|AET03875.1| Mitochondrial chaperone BCS1 [Medicago truncatula]

 Score =  217 bits (553), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 117/252 (46%), Positives = 146/252 (57%), Gaps = 52/252 (20%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TFDTLA+D ++K+ +M+DLERFVKRKE+YR VGKAWK  Y LYGPPGTGKSSL+AAM NY
Sbjct: 223 TFDTLALDRDLKEFVMEDLERFVKRKEYYRQVGKAWKRGYLLYGPPGTGKSSLVAAMANY 282

Query: 61  LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID---------------------- 98
           L+FD+YDLEL     N ELR +LIA  N+SI+VV DID                      
Sbjct: 283 LHFDIYDLELGELSSNAELRRLLIAMPNRSIVVVEDIDCTVEFQDRSSQSKSGRCNDKQV 342

Query: 99  -----------------------YLTLH------ILLRSSCMDMHIHMSYCTPFRFKMLA 129
                                  + T H       LLR   MD+HIHMSYCTPF F+ LA
Sbjct: 343 TLSGLLNFIDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDVHIHMSYCTPFGFRQLA 402

Query: 130 SNYFGITEHPLLTEIDELIEKANVTLADVVEQLMRNKVPEIALRGLTDVFKIKQ-TENDE 188
             Y GI EH L  EI+E I++  VT A+V EQL++    E  L+GL+D    K+ T   E
Sbjct: 403 FRYLGIKEHTLFGEIEETIQQTPVTPAEVAEQLLKGSETETTLKGLSDFLTKKRVTRELE 462

Query: 189 SKAKEAKEERAD 200
           +K +E +E+  D
Sbjct: 463 AKKREQEEQHRD 474

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	204
TAIR|locus:2077997	576	BCS1 "cytochrome BC1 synthesis	0.529	0.187	0.651	5.7e-55
TAIR|locus:2078007	451	AT3G50940 [Arabidopsis thalian	0.480	0.217	0.642	4.2e-51
TAIR|locus:1005716649	495	AT2G18193 [Arabidopsis thalian	0.480	0.197	0.704	2.3e-50
TAIR|locus:2053109	494	AT2G18190 [Arabidopsis thalian	0.534	0.220	0.605	7.7e-50
TAIR|locus:2175946	470	AT5G17730 [Arabidopsis thalian	0.549	0.238	0.539	1.4e-48
TAIR|locus:2175986	505	AT5G17760 [Arabidopsis thalian	0.480	0.194	0.612	6.8e-47
TAIR|locus:2175956	533	AT5G17740 [Arabidopsis thalian	0.480	0.183	0.602	2.3e-45
TAIR|locus:2095537	474	AT3G28610 [Arabidopsis thalian	0.480	0.206	0.591	9.3e-44
TAIR|locus:505006520	506	AT4G25835 [Arabidopsis thalian	0.480	0.193	0.622	1.9e-43
TAIR|locus:2095532	477	AT3G28600 [Arabidopsis thalian	0.480	0.205	0.571	8.4e-42

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

 Score = 372 (136.0 bits), Expect = 5.7e-55, Sum P(2) = 5.7e-55
 Identities = 71/109 (65%), Positives = 88/109 (80%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TF TLAMDS++K  +M+DL++FVKR++FY+ VGKAWK  Y LYGPPGTGKSSLIAAM N+
Sbjct:   263 TFKTLAMDSDVKTSVMEDLDKFVKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANH 322

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSS 109
             LNFD+YDLELT    N ELR +LIAT N+SIL+V DID  +L +  R+S
Sbjct:   323 LNFDIYDLELTAVNNNSELRRLLIATANRSILIVEDID-CSLELKDRTS 370

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:2078007 AT3G50940 [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 4.2e-51, Sum P(2) = 4.2e-51
 Identities = 63/98 (64%), Positives = 80/98 (81%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TF TLA+D  +K+ +++DL+RFV+RK FY  VGKAWK  Y LYGPPGTGKSSLIAA+ N+
Sbjct:   211 TFRTLALDPEVKKNLVEDLDRFVQRKGFYGRVGKAWKRGYLLYGPPGTGKSSLIAAIANH 270

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             LNFD+YDL+LT+   N ELR +L++T N+SILVV DID
Sbjct:   271 LNFDIYDLDLTSLNNNAELRRLLMSTANRSILVVEDID 308

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:1005716649 AT2G18193 [Arabidopsis thaliana (taxid:3702)]

 Score = 371 (135.7 bits), Expect = 2.3e-50, Sum P(2) = 2.3e-50
 Identities = 69/98 (70%), Positives = 83/98 (84%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TFDTLAMD N K+ I+DDLERF+KRKEFY+ VGKAWK  Y LYGPPGTGKSSLIAAM NY
Sbjct:   207 TFDTLAMDPNAKKKIIDDLERFLKRKEFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 266

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             L FDV+DLEL++  +N EL+ +L++T N+SILV+ DID
Sbjct:   267 LKFDVFDLELSSIYDNGELKRVLLSTTNRSILVIEDID 304

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:2053109 AT2G18190 [Arabidopsis thaliana (taxid:3702)]

 Score = 361 (132.1 bits), Expect = 7.7e-50, Sum P(2) = 7.7e-50
 Identities = 66/109 (60%), Positives = 88/109 (80%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TF+TLAMD   K+ I+DD+ERF+KR+EFY+ VGKAWK  Y LYGPPGTGKSSLIAAM NY
Sbjct:   208 TFETLAMDPGAKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 267

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSS 109
             L FDV+DLEL++  EN +L+++L++T N+SILV+ DID  +  ++ R +
Sbjct:   268 LKFDVFDLELSSIYENAQLKSILLSTTNRSILVIEDIDCSSAEVVDREA 316

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:2175946 AT5G17730 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 1.4e-48, Sum P(2) = 1.4e-48
 Identities = 61/113 (53%), Positives = 85/113 (75%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TFDT+AM+  +K+ +M DL+RF++RK+FY+ VGK WK  Y LYGPPGTGK+SL+AA+ NY
Sbjct:   209 TFDTMAMNEELKRSVMGDLDRFIRRKDFYKRVGKPWKRGYLLYGPPGTGKTSLVAAIANY 268

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDY-LTLHILLRSSCMD 112
             L FD+YDL+L + +E+ +LR +L+ T N SIL+V DID  + LH  L+    D
Sbjct:   269 LKFDIYDLQLASVREDADLRRLLLGTTNSSILLVEDIDCAVDLHTRLQPKTQD 321

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 = 350 (128.3 bits), Expect = 6.8e-47, Sum P(2) = 6.8e-47
 Identities = 60/98 (61%), Positives = 83/98 (84%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TF+T+AM+ ++K+ +++DL+RF++RKEFY+ VGKAWK  Y LYGPPGTGKSSL+AAM NY
Sbjct:   217 TFETMAMEDDLKRDVIEDLDRFIRRKEFYKRVGKAWKRGYLLYGPPGTGKSSLVAAMANY 276

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             L FDVYDL+L +   + +LR +L+AT+N+SILV+ DID
Sbjct:   277 LKFDVYDLQLASVMRDSDLRRLLLATRNRSILVIEDID 314

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:2175956 AT5G17740 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 2.3e-45, Sum P(2) = 2.3e-45
 Identities = 59/98 (60%), Positives = 81/98 (82%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TFDT+AM+ ++K+ +++DL+RFV RK+FY+ VGKAWK  Y LYGPPGTGKSSL+AAM NY
Sbjct:   209 TFDTMAMNDDLKRSMIEDLDRFVGRKDFYKRVGKAWKRGYLLYGPPGTGKSSLVAAMANY 268

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             L FD+YDL+L + + +  LR++L+AT N SIL++ DID
Sbjct:   269 LKFDIYDLQLASVQGDAHLRSLLLATNNSSILLIEDID 306

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:2095537 AT3G28610 [Arabidopsis thaliana (taxid:3702)]

 Score = 322 (118.4 bits), Expect = 9.3e-44, Sum P(2) = 9.3e-44
 Identities = 58/98 (59%), Positives = 74/98 (75%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TF+TLAMD   K+ I++DL  F   K++Y+ +GKAWK  Y LYGPPGTGKS++IAAM N 
Sbjct:   201 TFETLAMDPKKKEQILNDLAAFNNGKDYYKKIGKAWKRGYLLYGPPGTGKSTMIAAMANL 260

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             LN+ +YDLELT  + N ELR +L AT NKSI+V+ DID
Sbjct:   261 LNYSIYDLELTAIQNNSELRKILTATSNKSIIVIEDID 298

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:0042991 "transcription factor import into nucleus" evidence=RCA

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

 Score = 329 (120.9 bits), Expect = 1.9e-43, Sum P(2) = 1.9e-43
 Identities = 61/98 (62%), Positives = 74/98 (75%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             TFDTLAMD   KQ IM+DL+ F + + FY   G+AWK  Y LYGPPGTGKSS+IAAM NY
Sbjct:   201 TFDTLAMDPVKKQQIMEDLKDFAECQSFYERTGRAWKRGYLLYGPPGTGKSSMIAAMANY 260

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             L +D+YDLELT  K N ELR +L+ T +KSI+V+ DID
Sbjct:   261 LRYDIYDLELTEVKSNSELRKLLMKTSSKSIIVIEDID 298

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

TAIR|locus:2095532 AT3G28600 [Arabidopsis thaliana (taxid:3702)]

 Score = 314 (115.6 bits), Expect = 8.4e-42, Sum P(2) = 8.4e-42
 Identities = 56/98 (57%), Positives = 75/98 (76%)

Query:     1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
             +F TLAMD+  K+ I++DL  F   KE+Y+ +GKAWK  Y L+GPPGTGKS++IAAM N+
Sbjct:   202 SFHTLAMDTKKKEEILNDLAAFSNGKEYYKKIGKAWKRGYLLHGPPGTGKSTMIAAMANH 261

Query:    61 LNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID 98
             LN+ +YDLELT  + N ELR +L AT +KSI+V+ DID
Sbjct:   262 LNYSIYDLELTAIRNNSELRKLLTATSSKSIIVIEDID 299

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

---

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	204
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-05
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	7e-05
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	1e-04
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-04
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	4e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.001
PRK08939	306	PRK08939, PRK08939, primosomal protein DnaI; Revie	0.003
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	0.004

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

 Score = 44.8 bits (106), Expect = 1e-05
 Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 8/108 (7%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           T D +      K+ + + +E  +KR E +R +G        LYGPPGTGK+ L  A+   
Sbjct: 240 TLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE 299

Query: 61  LN--------FDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL 100
                      ++    +   ++N+            SI+ + +ID L
Sbjct: 300 SRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSL 347

Length = 494

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 42.6 bits (101), Expect = 7e-05
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKN 88
          HS  L+GPPGTGK++L   +    N     L   T     +LR ++   + 
Sbjct: 49 HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVK-DLREIIEEARK 98

Length = 436

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

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 8/65 (12%)

Query: 42 LYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENME------LRNMLIATK--NKSILV 93
          LYGPPGTGK++L  A+   L     ++  +             LR +  A K     ++ 
Sbjct: 3  LYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIF 62

Query: 94 VGDID 98
          + +ID
Sbjct: 63 IDEID 67

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

>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 = 39.4 bits (92), Expect = 2e-04
 Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 14/79 (17%)

Query: 37  KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM-----------ELRNM 82
             +  LYGPPGTGK++L  A+ N L         L  +   E +            L   
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78

Query: 83  LIATKNKSILVVGDIDYLT 101
           L       +L + +ID L+
Sbjct: 79  LAEKAKPGVLFIDEIDSLS 97

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|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 40.1 bits (95), Expect = 4e-04
 Identities = 10/29 (34%), Positives = 15/29 (51%)

Query: 38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVY 66
           S  L+GPPGTGK++L   +    +    
Sbjct: 37 SSMILWGPPGTGKTTLARIIAGATDAPFE 65

Length = 413

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

 Score = 39.1 bits (92), Expect = 0.001
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 5/40 (12%)

Query: 34 KAWKHSY-----FLYGPPGTGKSSLIAAMTNYLNFDVYDL 68
          ++W          LYGPPG GK+SL  A+ N   ++V +L
Sbjct: 31 ESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIEL 70

Length = 482

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

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 10  NMKQMIMDDLER---FVKRKEFYRNVGKAWKH-SYFLYGPPGTGKSSLIAAMTNYL 61
           ++  + +DD +R    +   +F        K    +LYG  G GKS L+AA+ N L
Sbjct: 125 SLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANEL 180

Length = 306

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

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 15/38 (39%), Positives = 20/38 (52%)

Query: 22  FVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTN 59
           F+K+ E +  VG        L GPPGTGK+ L  A+  
Sbjct: 201 FLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG 238

Length = 638

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	204
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.95
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.94
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.94
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.94
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.93
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.93
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.93
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.93
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.92
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.91
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.91
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.91
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.9
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.9
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.9
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.9
CHL00195	489	ycf46 Ycf46; Provisional	99.89
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.89
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.88
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.88
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.88
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.88
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.87
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.87
CHL00176	638	ftsH cell division protein; Validated	99.87
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.87
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.86
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.84
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.83
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.82
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.82
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.81
CHL00206	2281	ycf2 Ycf2; Provisional	99.78
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.78
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.76
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.75
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.7
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.69
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.64
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.62
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.61
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.61
CHL00181	287	cbbX CbbX; Provisional	99.6
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.59
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.58
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.56
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.55
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.55
PRK04195	482	replication factor C large subunit; Provisional	99.54
PF00004	132	AAA: ATPase family associated with various cellula	99.5
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.46
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.46
PRK06893	229	DNA replication initiation factor; Validated	99.46
PLN03025	319	replication factor C subunit; Provisional	99.46
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.45
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.44
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.44
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.42
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.42
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.41
PHA02544	316	44 clamp loader, small subunit; Provisional	99.41
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.39
PRK13342	413	recombination factor protein RarA; Reviewed	99.39
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.39
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.38
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.38
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.37
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.37
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.37
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.35
PRK08727	233	hypothetical protein; Validated	99.35
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.34
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.34
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.34
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.33
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.33
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.32
PRK13341	725	recombination factor protein RarA/unknown domain f	99.32
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.32
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.31
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.31
PRK08084	235	DNA replication initiation factor; Provisional	99.31
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.3
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.29
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.29
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.28
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.28
CHL00095	821	clpC Clp protease ATP binding subunit	99.27
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.27
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.27
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.25
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.24
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.24
PRK10865	857	protein disaggregation chaperone; Provisional	99.24
PRK12402	337	replication factor C small subunit 2; Reviewed	99.23
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.23
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.22
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.22
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.21
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.21
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.21
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.2
CHL00095	821	clpC Clp protease ATP binding subunit	99.2
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.2
PRK05642	234	DNA replication initiation factor; Validated	99.2
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.19
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.19
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.19
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.18
KOG2028	554	consensus ATPase related to the helicase subunit o	99.18
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.17
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.16
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.16
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.16
PRK06620	214	hypothetical protein; Validated	99.16
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.15
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.15
PRK12377	248	putative replication protein; Provisional	99.15
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.15
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.15
PRK10865	857	protein disaggregation chaperone; Provisional	99.15
PRK08939	306	primosomal protein DnaI; Reviewed	99.13
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.13
PRK07952	244	DNA replication protein DnaC; Validated	99.11
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.11
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.11
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.1
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.1
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.1
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.08
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.08
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.08
PRK09087	226	hypothetical protein; Validated	99.07
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.07
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.05
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.04
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.04
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.04
PRK12422	445	chromosomal replication initiation protein; Provis	99.04
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.04
PRK08116	268	hypothetical protein; Validated	99.04
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.02
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.02
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.98
PRK08181	269	transposase; Validated	98.97
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	98.97
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.96
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.96
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.96
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.94
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.93
smart00382	148	AAA ATPases associated with a variety of cellular	98.92
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.91
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.89
PRK06921	266	hypothetical protein; Provisional	98.87
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.86
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.85
PHA02244	383	ATPase-like protein	98.85
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.84
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.84
PRK06835	329	DNA replication protein DnaC; Validated	98.82
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.81
PRK06526	254	transposase; Provisional	98.81
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.81
COG0714	329	MoxR-like ATPases [General function prediction onl	98.8
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.79
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.79
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.78
PF07726	131	AAA_3: ATPase family associated with various cellu	98.77
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.77
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.77
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.77
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.77
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.75
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.73
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.72
PRK08118	167	topology modulation protein; Reviewed	98.71
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.71
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.71
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.7
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.7
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.7
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.68
PHA00729	226	NTP-binding motif containing protein	98.68
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.68
PRK09183	259	transposase/IS protein; Provisional	98.64
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.63
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.62
COG2204	464	AtoC Response regulator containing CheY-like recei	98.62
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.6
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.59
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.56
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.56
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.55
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.53
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.52
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.51
PF13173	128	AAA_14: AAA domain	98.51
PRK07261	171	topology modulation protein; Provisional	98.51
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.47
PRK13531	498	regulatory ATPase RavA; Provisional	98.47
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.47
PRK04132	846	replication factor C small subunit; Provisional	98.47
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.46
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.44
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.42
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.42
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.42
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.4
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.4
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.38
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.36
PRK15455	644	PrkA family serine protein kinase; Provisional	98.36
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.34
) 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	98.34
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.34
PHA02624	647	large T antigen; Provisional	98.32
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.31
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.31
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.31
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.29
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.29
PRK06217	183	hypothetical protein; Validated	98.28
smart00350	509	MCM minichromosome maintenance proteins.	98.28
PRK00131	175	aroK shikimate kinase; Reviewed	98.26
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.26
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.26
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.25
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.25
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.24
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.22
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.22
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.21
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	98.17
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	98.17
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	98.16
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.14
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.14
PRK03839	180	putative kinase; Provisional	98.13
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.13
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.11
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.1
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.09
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	98.09
PRK15115	444	response regulator GlrR; Provisional	98.09
PRK13947	171	shikimate kinase; Provisional	98.08
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	98.08
PRK13949	169	shikimate kinase; Provisional	98.07
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.06
PRK00625	173	shikimate kinase; Provisional	98.06
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.05
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.05
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	98.05
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	98.02
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.02
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.01
PRK14532	188	adenylate kinase; Provisional	98.0
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.0
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.0
PHA02774	613	E1; Provisional	98.0
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	98.0
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.0
PRK10365	441	transcriptional regulatory protein ZraR; Provision	97.99
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.98
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	97.97
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.96
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.96
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.95
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.95
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.95
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.95
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	97.94
PRK14530	215	adenylate kinase; Provisional	97.94
PRK13808	333	adenylate kinase; Provisional	97.94
PRK06762	166	hypothetical protein; Provisional	97.94
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.93
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.93
PRK13948	182	shikimate kinase; Provisional	97.92
PRK05057	172	aroK shikimate kinase I; Reviewed	97.92
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.92
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.91
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.91
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.91
PRK14531	183	adenylate kinase; Provisional	97.91
PF05729	166	NACHT: NACHT domain	97.9
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.89
PRK14737	186	gmk guanylate kinase; Provisional	97.88
PRK06547	172	hypothetical protein; Provisional	97.87
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.87
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	97.87
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.87
PRK13946	184	shikimate kinase; Provisional	97.87
PTZ00301	210	uridine kinase; Provisional	97.86
PTZ00088	229	adenylate kinase 1; Provisional	97.86
PRK03731	171	aroL shikimate kinase II; Reviewed	97.85
PF13245	76	AAA_19: Part of AAA domain	97.85
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.85
PRK06696	223	uridine kinase; Validated	97.84
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.83
PRK02496	184	adk adenylate kinase; Provisional	97.83
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.82
PRK14528	186	adenylate kinase; Provisional	97.82
cd01128	249	rho_factor Transcription termination factor rho is	97.82
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.82
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.81
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.8
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.8
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	97.8
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.79
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.79
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	97.79
PRK00279	215	adk adenylate kinase; Reviewed	97.79
PRK14527	191	adenylate kinase; Provisional	97.78
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.78
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	97.78
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.78
COG4650	531	RtcR Sigma54-dependent transcription regulator con	97.77
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.76
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.75
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.75
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.75
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.74
PRK08233	182	hypothetical protein; Provisional	97.73
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.73
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.73
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.72
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.72
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.72
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.71
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.71
PLN02200	234	adenylate kinase family protein	97.71
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.7
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.7
PRK04040	188	adenylate kinase; Provisional	97.7
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.69
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.69
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.69
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.68
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	97.67
PRK01184	184	hypothetical protein; Provisional	97.67
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.66
PRK09376	416	rho transcription termination factor Rho; Provisio	97.66
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	97.66
PHA02530	300	pseT polynucleotide kinase; Provisional	97.65
PRK14526	211	adenylate kinase; Provisional	97.65
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	97.65
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.64
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.64
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.63
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	97.63
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.63
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.62
PRK04182	180	cytidylate kinase; Provisional	97.62
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.62
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.62
PRK13765	637	ATP-dependent protease Lon; Provisional	97.61
PRK05480	209	uridine/cytidine kinase; Provisional	97.61
PRK11823	446	DNA repair protein RadA; Provisional	97.61
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	97.61
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.61
COG1855	604	ATPase (PilT family) [General function prediction	97.6
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.6
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.6
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.6
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.6
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.59
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.59
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	97.59
PRK04296	190	thymidine kinase; Provisional	97.59
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.58
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.57
PRK05541	176	adenylylsulfate kinase; Provisional	97.57
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.57
TIGR00767	415	rho transcription termination factor Rho. Members	97.56
PRK14529	223	adenylate kinase; Provisional	97.56
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	97.56
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.55
PF13479	213	AAA_24: AAA domain	97.54
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.54
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.54
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.54
PRK00889	175	adenylylsulfate kinase; Provisional	97.54
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.53
PRK06067	234	flagellar accessory protein FlaH; Validated	97.53
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.53
PRK09825	176	idnK D-gluconate kinase; Provisional	97.53
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.52
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.52
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.51
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.51
PRK12339	197	2-phosphoglycerate kinase; Provisional	97.51
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.5
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.5
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.5
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.5
PLN02674	244	adenylate kinase	97.5
PRK10416	318	signal recognition particle-docking protein FtsY;	97.49
PRK07276	290	DNA polymerase III subunit delta'; Validated	97.48
PLN02165	334	adenylate isopentenyltransferase	97.48
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.48
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.48
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.48
PRK12608	380	transcription termination factor Rho; Provisional	97.47
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	97.47
PLN02199	303	shikimate kinase	97.47
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.47
PRK04328	249	hypothetical protein; Provisional	97.46
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.46
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	97.45
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.45
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.45
PRK00300	205	gmk guanylate kinase; Provisional	97.44
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.44
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.43
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.43
PRK14730	195	coaE dephospho-CoA kinase; Provisional	97.43
PRK05973	237	replicative DNA helicase; Provisional	97.43
COG4133	209	CcmA ABC-type transport system involved in cytochr	97.42
PLN02459	261	probable adenylate kinase	97.42
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.42
COG1123	539	ATPase components of various ABC-type transport sy	97.42
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.41
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	97.41
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.41
PRK07667	193	uridine kinase; Provisional	97.4
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.4
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	97.4
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.4
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.39
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.39
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.39
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	97.39
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	97.38
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.38
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.37
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.37
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.37
PRK11545	163	gntK gluconate kinase 1; Provisional	97.37
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.37
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.36
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.36
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.36
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.36
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	97.36
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.36
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.35
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.35
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.35
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	97.34
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	97.34
PRK12338	319	hypothetical protein; Provisional	97.34
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.34
PRK03846	198	adenylylsulfate kinase; Provisional	97.34
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	97.34
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	97.33
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.33
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	97.33
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.33
PRK08356	195	hypothetical protein; Provisional	97.33
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.32
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.32
COG1127	263	Ttg2A ABC-type transport system involved in resist	97.32
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.31
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.31
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.31
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.31
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.31
PRK14974	336	cell division protein FtsY; Provisional	97.31
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.3
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.3
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.3
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.3
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	97.3
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.29
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	97.29
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.29
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.29
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	97.28
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.28
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.28
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	97.28
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	97.28
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	97.28
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.28
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	97.28
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.28
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	97.27
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.27
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	97.27
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.27
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	97.27
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	97.27
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	97.27
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.27
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.27
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.26
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	97.26
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.26

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

Probab=100.00  E-value=6.9e-34  Score=239.14  Aligned_cols=188  Identities=57%  Similarity=0.956  Sum_probs=176.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|+.+.+.++.|+.|++++..|...+++|.+.|.++.+|+|||||||||||+++.|+|++++.+++.+++++.....+++
T Consensus       199 tF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr  278 (457)
T KOG0743|consen  199 TFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLR  278 (457)
T ss_pred             CccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999998999


Q ss_pred             HHHHhcCCCeEEEEecCCcc---------------------chh-------------------------------hhhhc
Q 041769           81 NMLIATKNKSILVVGDIDYL---------------------TLH-------------------------------ILLRS  108 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~---------------------~~~-------------------------------a~~r~  108 (204)
                      +++...++.+||+|+|||+.                     |+|                               |++||
T Consensus       279 ~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRp  358 (457)
T KOG0743|consen  279 HLLLATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRP  358 (457)
T ss_pred             HHHHhCCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCC
Confidence            99999999999999999997                     222                               99999


Q ss_pred             cccceeEecCCCCHHHHHHHHHHhhCCC-CCCcHHHHHHHhhhCCCCHHHHHHHHhcCC-CHHHHHHhHHHHHHhhhhch
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNYFGIT-EHPLLTEIDELIEKANVTLADVVEQLMRNK-VPEIALRGLTDVFKIKQTEN  186 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  186 (204)
                      ||+|.+|.+++.+.++++.++.+|++.. .+.+.+++..+.+...+|||||++.+|.+. +.+.+++.+.+.++....+.
T Consensus       359 GRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~~~~~~  438 (457)
T KOG0743|consen  359 GRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKGLVEALESKKEKR  438 (457)
T ss_pred             CcceeEEEcCCCCHHHHHHHHHHhcCCCCCcchhHHHHHHhhcCccCHHHHHHHHhhccccHHHHHHHHHHHHHhhhhhh
Confidence            9999999999999999999999999997 489999999999999999999999999887 89999999999999877655


Q ss_pred             hh
Q 041769          187 DE  188 (204)
Q Consensus       187 ~~  188 (204)
                      ++
T Consensus       439 ~~  440 (457)
T KOG0743|consen  439 NK  440 (457)
T ss_pred             cc
Confidence            44

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

Probab=100.00  E-value=1.1e-32  Score=225.72  Aligned_cols=164  Identities=21%  Similarity=0.237  Sum_probs=139.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+++++++.+.+...+.+++.|..+|+.+|+|+|||||||||||.||+|+|++.+.+|+.+..|.+.      
T Consensus       149 tY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGE  228 (406)
T COG1222         149 TYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGE  228 (406)
T ss_pred             ChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhcc
Confidence            58899999999999999999999999999999999999999999999999999999999999999999998862      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCcc---------------------------------------------chh-hhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYL---------------------------------------------TLH-ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~---------------------------------------------~~~-a~~  106 (204)
                      +..-++++|..+  +.|+||||||||++                                             +++ |++
T Consensus       229 GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALL  308 (406)
T COG1222         229 GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALL  308 (406)
T ss_pred             chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhc
Confidence            234556777766  48999999999999                                             111 999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHhc
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLMR  164 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~~  164 (204)
                      ||||||+.|+||.|+...|..|+..|...-...-...+..++. ..++|+|+++.+|..
T Consensus       309 RPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictE  367 (406)
T COG1222         309 RPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTE  367 (406)
T ss_pred             CCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHH
Confidence            9999999999999999999999998876543333233333333 257899999998853

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

Probab=99.95  E-value=9.8e-28  Score=209.04  Aligned_cols=163  Identities=19%  Similarity=0.253  Sum_probs=140.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+++|.++.+.+.-.+.+++.|.++|+.+++|||||||||||||++|+++|.+.+.+++.+...++.      
T Consensus       432 ~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGe  511 (693)
T KOG0730|consen  432 SWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGE  511 (693)
T ss_pred             ChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999877652      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccch-------------------------------------------hhhhhcc
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLTL-------------------------------------------HILLRSS  109 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~~-------------------------------------------~a~~r~~  109 (204)
                      ++..++++|.++.  .|+||||||||++.-                                           .|++|||
T Consensus       512 SEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPG  591 (693)
T KOG0730|consen  512 SERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPG  591 (693)
T ss_pred             hHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCc
Confidence            4577899999984  789999999999900                                           1999999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |||..|+++.|+.+.|..|++.+.....-.-...+..+.. ..+||++|+.++|-
T Consensus       592 RlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq  646 (693)
T KOG0730|consen  592 RLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQ  646 (693)
T ss_pred             ccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHH
Confidence            9999999999999999999988876543322233444444 36899999999884

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

Probab=99.94  E-value=1.7e-26  Score=197.17  Aligned_cols=161  Identities=20%  Similarity=0.311  Sum_probs=136.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++|-|-++.|+++ +.+..|+..++-|..+|-..|+|+||+||||||||.|||++|++.+.++++...+.+.      
T Consensus       302 ~F~dVkG~DEAK~EL-eEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGv  380 (752)
T KOG0734|consen  302 TFEDVKGVDEAKQEL-EEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGV  380 (752)
T ss_pred             ccccccChHHHHHHH-HHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcc
Confidence            589999999999998 5566688999999999999999999999999999999999999999999998888752      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCcc--------------chh-----------------------------hhhhcc
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYL--------------TLH-----------------------------ILLRSS  109 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~--------------~~~-----------------------------a~~r~~  109 (204)
                      +...++.+|.++.  .||||||||+|.+              |++                             |+.|||
T Consensus       381 GArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL~RPG  460 (752)
T KOG0734|consen  381 GARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDKALTRPG  460 (752)
T ss_pred             cHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhHHhcCCC
Confidence            4467888888874  7999999999999              221                             999999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHH
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQL  162 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~  162 (204)
                      |||++|.+|.|+..-|.+|+..|+......-.....-+.+ ..||+++|+.+++
T Consensus       461 RFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlV  514 (752)
T KOG0734|consen  461 RFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLV  514 (752)
T ss_pred             ccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHH
Confidence            9999999999999999999999987653332223333444 3789999999977

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

Probab=99.94  E-value=5.3e-26  Score=196.66  Aligned_cols=159  Identities=18%  Similarity=0.241  Sum_probs=135.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+.+..++.+.+.. +.+++.|..+|+.+++|+|||||||||||+||+++|++++.+++.+++.++.      
T Consensus       188 ~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGE  266 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGE  266 (802)
T ss_pred             chhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcc
Confidence            488999999999999888887 7899999999999999999999999999999999999999999999987762      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccch----------------------------------------------h-hh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLTL----------------------------------------------H-IL  105 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~~----------------------------------------------~-a~  105 (204)
                      +...++++|..+.  .|||+||||||.++.                                              + ++
T Consensus       267 SEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaL  346 (802)
T KOG0733|consen  267 SEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPAL  346 (802)
T ss_pred             cHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCcccCHHH
Confidence            3477899999985  799999999999911                                              1 88


Q ss_pred             hhccccceeEecCCCCHHHHHHHHHHhhCCCC---CCcHHHHHHHhhhCCCCHHHHHHHH
Q 041769          106 LRSSCMDMHIHMSYCTPFRFKMLASNYFGITE---HPLLTEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       106 ~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~i~~~~  162 (204)
                      .|.||||+.|.+..|+..+|..|++..+....   .....+++.+.  .||.+||+..++
T Consensus       347 RRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lT--PGfVGADL~AL~  404 (802)
T KOG0733|consen  347 RRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLT--PGFVGADLMALC  404 (802)
T ss_pred             hccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcC--CCccchhHHHHH
Confidence            88899999999999999999998887665332   23334444444  688999999888

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

Probab=99.94  E-value=5.7e-26  Score=196.44  Aligned_cols=162  Identities=18%  Similarity=0.236  Sum_probs=137.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|+++++..+++.++.-.+...+.+++.|..+|+..|.|+|||||||||||.+|+|+|++.|.+|+.+....+.      
T Consensus       509 tW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGE  588 (802)
T KOG0733|consen  509 TWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGE  588 (802)
T ss_pred             ChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999887763      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccch-------------------------------------------hhhhhcc
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLTL-------------------------------------------HILLRSS  109 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~~-------------------------------------------~a~~r~~  109 (204)
                      +...++.+|..+.  .||||||||+|.+..                                           .|++|||
T Consensus       589 SErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPG  668 (802)
T KOG0733|consen  589 SERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPG  668 (802)
T ss_pred             HHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCC
Confidence            3356788888874  799999999999910                                           1999999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCC-----CCCcHHHHHHHhhhCCCCHHHHHHHH
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGIT-----EHPLLTEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~-----~~~~~~~~~~~~~~~~l~~~~i~~~~  162 (204)
                      |||..+.+++|+..+|..|++.+....     .....++++...+-.+|++||+..++
T Consensus       669 RlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLv  726 (802)
T KOG0733|consen  669 RLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALV  726 (802)
T ss_pred             ccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHH
Confidence            999999999999999999988777632     22223334433333589999999877

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

Probab=99.93  E-value=1.3e-25  Score=177.23  Aligned_cols=163  Identities=21%  Similarity=0.306  Sum_probs=133.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      ++.+++|.+-+|+++.+.+...+.+.++|.++|+.+|+|+|+|||||||||.|++++|+.....++.+..+.+.      
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylge  232 (408)
T KOG0727|consen  153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGE  232 (408)
T ss_pred             cccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhcc
Confidence            46789999999999999999999999999999999999999999999999999999999999999999988752      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCcc---------------------------------------------chh-hhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYL---------------------------------------------TLH-ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~---------------------------------------------~~~-a~~  106 (204)
                      +...++.+|.-+  ..|+||||||+|.+                                             |++ +++
T Consensus       233 gprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnradtldpall  312 (408)
T KOG0727|consen  233 GPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRADTLDPALL  312 (408)
T ss_pred             CcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCcccccCHhhc
Confidence            345667777666  47899999999998                                             111 999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHH-HhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDE-LIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~i~~~~~  163 (204)
                      ||||+|++|+||.|+..+++.++..............+.+ +++.-.+++++|...|-
T Consensus       313 rpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicq  370 (408)
T KOG0727|consen  313 RPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQ  370 (408)
T ss_pred             CCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHH
Confidence            9999999999999999998777665544332222223333 34446678889888774

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

Probab=99.93  E-value=6.1e-25  Score=194.04  Aligned_cols=160  Identities=21%  Similarity=0.327  Sum_probs=132.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc------c
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF------K   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~------~   74 (204)
                      +|+|++|.+++|..|++.++..+.++++|.. |...+.|+|||||||||||.+|+|+|-++..+++++...++      .
T Consensus       670 ~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGq  748 (953)
T KOG0736|consen  670 SWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQ  748 (953)
T ss_pred             chhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcc
Confidence            5999999999999999999999999998774 77778899999999999999999999999999999988775      3


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccchh-----------------------------------------------hh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLTLH-----------------------------------------------IL  105 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~~~-----------------------------------------------a~  105 (204)
                      ++.+++++|+++.  .||||||||+|++..+                                               ++
T Consensus       749 SE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpAL  828 (953)
T KOG0736|consen  749 SEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPAL  828 (953)
T ss_pred             hHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhh
Confidence            5689999999984  8999999999999110                                               99


Q ss_pred             hhccccceeEecCCCCHHHH-HHHHHH---hhCCCCCCcHHHHHHHhhhCCCCHHHHHHHH
Q 041769          106 LRSSCMDMHIHMSYCTPFRF-KMLASN---YFGITEHPLLTEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       106 ~r~~R~~~~i~~~~p~~~~~-~~i~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~i~~~~  162 (204)
                      +||||||.-++++.+...+- ..+++.   -+.........+++..|. ..+|+||+..+|
T Consensus       829 LRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp-~~~TGADlYsLC  888 (953)
T KOG0736|consen  829 LRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCP-PNMTGADLYSLC  888 (953)
T ss_pred             cCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCC-cCCchhHHHHHH
Confidence            99999999999999887664 333332   233334444455555555 468999999988

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

Probab=99.93  E-value=2e-25  Score=175.98  Aligned_cols=163  Identities=20%  Similarity=0.237  Sum_probs=133.6

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------C
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------E   75 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------~   75 (204)
                      ++-+.|.+.+.++|.+.+.....++++|+.+|+.+|.|++||||||||||.+|+++|.+..+.++.++.+.+.      +
T Consensus       146 YeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igeg  225 (404)
T KOG0728|consen  146 YEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEG  225 (404)
T ss_pred             HHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhh
Confidence            5678889999999999999999999999999999999999999999999999999999999999999988762      2


Q ss_pred             hHHHHHHHHhc--CCCeEEEEecCCccch----------------------------------------------hhhhh
Q 041769           76 NMELRNMLIAT--KNKSILVVGDIDYLTL----------------------------------------------HILLR  107 (204)
Q Consensus        76 ~~~~~~~~~~~--~~~~il~iDeid~~~~----------------------------------------------~a~~r  107 (204)
                      ...+++.|-.+  ..|+|||+||||++..                                              .|++|
T Consensus       226 srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allr  305 (404)
T KOG0728|consen  226 SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLR  305 (404)
T ss_pred             HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcC
Confidence            34456666655  4799999999999900                                              19999


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhc
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMR  164 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~  164 (204)
                      |||+|++|+||.|+.+.|..|+..+...-+..-...+..+.+. .|-+++++..+|..
T Consensus       306 pgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcte  363 (404)
T KOG0728|consen  306 PGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTE  363 (404)
T ss_pred             CCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhh
Confidence            9999999999999999998888766544322222334444443 46789999998854

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

Probab=99.93  E-value=1e-24  Score=194.74  Aligned_cols=162  Identities=22%  Similarity=0.329  Sum_probs=136.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|.||.|.++.|++|.+.+ .|+++++.|.++|...|+|+||+||||||||.||+|+|++.|.|++.++.+++.      
T Consensus       309 ~FkDVAG~deAK~El~E~V-~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~  387 (774)
T KOG0731|consen  309 KFKDVAGVDEAKEELMEFV-KFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGV  387 (774)
T ss_pred             ccccccCcHHHHHHHHHHH-HHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhccc
Confidence            4899999999999996554 588999999999999999999999999999999999999999999999998862      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCcc------------------chh-----------------------------hh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYL------------------TLH-----------------------------IL  105 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~------------------~~~-----------------------------a~  105 (204)
                      +.+.++.+|..+.  .|+++||||||.+                  |++                             |+
T Consensus       388 ~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~al  467 (774)
T KOG0731|consen  388 GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPAL  467 (774)
T ss_pred             chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHh
Confidence            3567788888874  7999999999998                  111                             99


Q ss_pred             hhccccceeEecCCCCHHHHHHHHHHhhCCCCCC-cHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          106 LRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHP-LLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       106 ~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      +||||||++|.+..|+...|..|+..|....... ....+..+.. ..++++++|+++|.
T Consensus       468 lrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~n  527 (774)
T KOG0731|consen  468 LRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCN  527 (774)
T ss_pred             cCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhh
Confidence            9999999999999999999999999887655332 2222332332 37899999999884

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

Probab=99.92  E-value=2.4e-24  Score=184.12  Aligned_cols=163  Identities=20%  Similarity=0.307  Sum_probs=132.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+.+++.+.+.+..++.+++.|..+|++.++|++||||||||||++++++|+.++.+++.+..+.+.      
T Consensus       143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge  222 (398)
T PTZ00454        143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGE  222 (398)
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcch
Confidence            58999999999999999999999999999999999999999999999999999999999999999988766542      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                      +...++.+|..+  ..|++|+|||+|.+.                                             + .+++
T Consensus       223 ~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAll  302 (398)
T PTZ00454        223 GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALL  302 (398)
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHc
Confidence            223456666555  478999999999750                                             0 0789


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |+||||..|.|+.|+..+|..|+..+...........+..++. ..+++++|+..+|.
T Consensus       303 R~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~  360 (398)
T PTZ00454        303 RPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQ  360 (398)
T ss_pred             CCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            9999999999999999999999988776432222223333333 36899999999884

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

Probab=99.91  E-value=3.1e-25  Score=177.99  Aligned_cols=164  Identities=22%  Similarity=0.269  Sum_probs=134.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|.++.|.+.+.++|.+.+...+.+++.|+..|+.+|.|+++||+||||||.||+|+|+.....|+.+-.+++.      
T Consensus       183 ty~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGd  262 (440)
T KOG0726|consen  183 TYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGD  262 (440)
T ss_pred             hhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhcc
Confidence            57899999999999999999999999999999999999999999999999999999999999888888777652      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCcc---------------------------------------------chh-hhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYL---------------------------------------------TLH-ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~---------------------------------------------~~~-a~~  106 (204)
                      +..-++++|..+  ..|+|+||||||.+                                             +++ |+.
T Consensus       263 GpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnrie~LDPaLi  342 (440)
T KOG0726|consen  263 GPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALI  342 (440)
T ss_pred             chHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEecccccccCHhhc
Confidence            234456666666  47999999999999                                             111 999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHh-hhCCCCHHHHHHHHhc
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELI-EKANVTLADVVEQLMR  164 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~i~~~~~~  164 (204)
                      ||||+|++|+|+.|+..+++.|+..+...-...-...+..++ ..-.+|+++|...|..
T Consensus       343 RPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictE  401 (440)
T KOG0726|consen  343 RPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTE  401 (440)
T ss_pred             CCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHH
Confidence            999999999999999999988887666543222222333333 3467999999998853

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.91  E-value=1.6e-23  Score=179.11  Aligned_cols=161  Identities=22%  Similarity=0.254  Sum_probs=132.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+++++.+.+.+...+.+++.|..+|+..++|++||||||||||++|+++|+.++.+++.++.+.+.      
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~  208 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGE  208 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccc
Confidence            47899999999999999999999999999999999999999999999999999999999999999999887753      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                      ....++.+|..+  ..+++|||||+|.+.                 +                             .+++
T Consensus       209 ~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~all  288 (389)
T PRK03992        209 GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAIL  288 (389)
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHc
Confidence            123455566654  368999999999860                 0                             0888


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCC---CcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEH---PLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      |||||+..|.++.|+..+|..|+..++.....   .....+...+  .+++++++..+|.
T Consensus       289 RpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t--~g~sgadl~~l~~  346 (389)
T PRK03992        289 RPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELT--EGASGADLKAICT  346 (389)
T ss_pred             CCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHc--CCCCHHHHHHHHH
Confidence            99999999999999999999999988764322   2233343333  6899999999874

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

Probab=99.91  E-value=1.7e-23  Score=173.33  Aligned_cols=172  Identities=19%  Similarity=0.315  Sum_probs=135.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      .|++|.|..+.|+-|.+.+...+--++.|..+-.|+ +|+|++||||||||.||+|+|-+++..|+.++.+.+.+     
T Consensus       210 kW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPW-kgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKwRGe  288 (491)
T KOG0738|consen  210 KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPW-KGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRGE  288 (491)
T ss_pred             ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhccccc-ceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhhccc
Confidence            489999999999999999999999999999776666 57999999999999999999999999999999887642     


Q ss_pred             hHHHHHHHHhc---CCCeEEEEecCCcc-----------------------------------------------chh-h
Q 041769           76 NMELRNMLIAT---KNKSILVVGDIDYL-----------------------------------------------TLH-I  104 (204)
Q Consensus        76 ~~~~~~~~~~~---~~~~il~iDeid~~-----------------------------------------------~~~-a  104 (204)
                      ...+.+++...   ..|+.|||||||.+                                               .++ |
T Consensus       289 SEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PWdiDEA  368 (491)
T KOG0738|consen  289 SEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPWDIDEA  368 (491)
T ss_pred             hHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEeccCCCcchHHH
Confidence            24455554444   37899999999999                                               111 7


Q ss_pred             hhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhcCCCHHHHHHhHHHHHH
Q 041769          105 LLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMRNKVPEIALRGLTDVFK  180 (204)
Q Consensus       105 ~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~  180 (204)
                      ++|  ||...|.+|.|+.+.|..++...+..........+..+.+. .|||++||.++|     .+.++..+.+.+.
T Consensus       369 lrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvC-----reAsm~~mRR~i~  438 (491)
T KOG0738|consen  369 LRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVC-----REASMMAMRRKIA  438 (491)
T ss_pred             HHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHH-----HHHHHHHHHHHHh
Confidence            777  99999999999999999999888765433322334444443 789999999999     4555555544443

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

Probab=99.90  E-value=4.5e-23  Score=177.55  Aligned_cols=163  Identities=20%  Similarity=0.267  Sum_probs=131.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|+++.|.+.+++.+.+.+...+.+++.|..+|+..+.|++||||||||||++|+++|+.++.+++.+..+.+..     
T Consensus       181 ~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge  260 (438)
T PTZ00361        181 SYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGD  260 (438)
T ss_pred             CHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcch
Confidence            578999999999999999999999999999999999999999999999999999999999999999888776531     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                       ...++.+|..+  ..+++|||||+|.+.                                             + .+++
T Consensus       261 ~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLl  340 (438)
T PTZ00361        261 GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALI  340 (438)
T ss_pred             HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhc
Confidence             23355566554  368999999998760                                             0 0788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHh-hhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELI-EKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~i~~~~~  163 (204)
                      |+|||+..|.|+.|+..++..|+..+...........+..++ ...+++++++..+|.
T Consensus       341 RpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~  398 (438)
T PTZ00361        341 RPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICT  398 (438)
T ss_pred             cCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHH
Confidence            999999999999999999999999887543222122333333 336899999998874

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

Probab=99.90  E-value=1.5e-23  Score=166.22  Aligned_cols=164  Identities=18%  Similarity=0.228  Sum_probs=127.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc-----cC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF-----KE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~-----~~   75 (204)
                      +++++.|.+.+.+++.+.+.....+++-|..+|+.+|.|+|+|||||||||.+||+-|...+..+..+-...+     ..
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfIGd  248 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGD  248 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhhcc
Confidence            4789999999999999999999999999999999999999999999999999999999998877766544332     12


Q ss_pred             h-HHHHHHHHhc--CCCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           76 N-MELRNMLIAT--KNKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        76 ~-~~~~~~~~~~--~~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                      . .-++..|.-+  ..|+||||||+|.+                 |+                             .+++
T Consensus       249 GAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDPALl  328 (424)
T KOG0652|consen  249 GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDPALL  328 (424)
T ss_pred             hHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCHHHh
Confidence            2 2334444444  47999999999998                 00                             0999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhc
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMR  164 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~  164 (204)
                      |+||+|++|+||.|+...|..|++.+.............++.+. -+|.+++.+.+|+.
T Consensus       329 RSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVE  387 (424)
T KOG0652|consen  329 RSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVE  387 (424)
T ss_pred             hcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehh
Confidence            99999999999999999998887776654433333334444432 46789998887753

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.90  E-value=9.8e-23  Score=186.83  Aligned_cols=162  Identities=20%  Similarity=0.236  Sum_probs=134.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+.+++.+.+.+...+..++.+..+|+..+.|+|||||||||||++|+++|.+++.+++.++.+++.      
T Consensus       451 ~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGe  530 (733)
T TIGR01243       451 RWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGE  530 (733)
T ss_pred             chhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCc
Confidence            48999999999999999999989999999999999999999999999999999999999999999999887652      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc-------------------------------------------h-hhhhhc
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT-------------------------------------------L-HILLRS  108 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~-------------------------------------------~-~a~~r~  108 (204)
                      +...++.+|..+  ..++||||||+|.+.                                           + .+++||
T Consensus       531 se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRp  610 (733)
T TIGR01243       531 SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRP  610 (733)
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCC
Confidence            235677888776  368999999999760                                           0 189999


Q ss_pred             cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                      ||||..+.++.|+..+|..|+..+...........+..+... .+++++++..+|
T Consensus       611 gRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~  665 (733)
T TIGR01243       611 GRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVC  665 (733)
T ss_pred             CccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHH
Confidence            999999999999999999999877664432222233334432 589999999877

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=99.90  E-value=1.2e-22  Score=178.44  Aligned_cols=162  Identities=18%  Similarity=0.236  Sum_probs=136.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      .|+++.|..++++.+.+.+....+.+..|...+++.+.|+|||||||||||.||.++|...+.+++++...++.      
T Consensus       665 ~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGa  744 (952)
T KOG0735|consen  665 RWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGA  744 (952)
T ss_pred             CceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcc
Confidence            48999999999999999999888899999999999999999999999999999999999999999999877652      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccch-------------------------------------------hhhhhcc
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLTL-------------------------------------------HILLRSS  109 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~~-------------------------------------------~a~~r~~  109 (204)
                      ++.+++.+|..+.  .|||+||||+|++..                                           .|++|||
T Consensus       745 SEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpG  824 (952)
T KOG0735|consen  745 SEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPG  824 (952)
T ss_pred             cHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCC
Confidence            4578899998884  899999999999900                                           1999999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                      |+|..+..+.|+..+|..|+..............+..+... .++++||++.+|
T Consensus       825 RlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll  878 (952)
T KOG0735|consen  825 RLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLL  878 (952)
T ss_pred             ccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHH
Confidence            99999999999999998888766553333333334433332 588999999887

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.89  E-value=1.3e-22  Score=177.10  Aligned_cols=160  Identities=18%  Similarity=0.189  Sum_probs=123.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++|.|.+..|+.+.+....+.   ......|++.++|+|||||||||||++|+++|++++.+++.++++.+.      
T Consensus       226 ~~~dvgGl~~lK~~l~~~~~~~~---~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGe  302 (489)
T CHL00195        226 KISDIGGLDNLKDWLKKRSTSFS---KQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGE  302 (489)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHhh---HHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccCh
Confidence            47889999888887766544332   234567889999999999999999999999999999999999987642      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCcc-----------------------------------ch-------hhhhhccc
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYL-----------------------------------TL-------HILLRSSC  110 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~-----------------------------------~~-------~a~~r~~R  110 (204)
                      +...++++|..+  ..|+||+|||+|.+                                   |.       .+++|+||
T Consensus       303 se~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GR  382 (489)
T CHL00195        303 SESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGR  382 (489)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCc
Confidence            235677777654  47999999999976                                   00       08889999


Q ss_pred             cceeEecCCCCHHHHHHHHHHhhCCCCCC--cHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          111 MDMHIHMSYCTPFRFKMLASNYFGITEHP--LLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       111 ~~~~i~~~~p~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||..+.++.|+.++|..|+..++......  ....+..+... .||+++||.+++.
T Consensus       383 FD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~  438 (489)
T CHL00195        383 FDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSII  438 (489)
T ss_pred             CCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHH
Confidence            99999999999999999999888653211  12233444443 6999999998774

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.89  E-value=2.7e-22  Score=176.68  Aligned_cols=181  Identities=18%  Similarity=0.276  Sum_probs=139.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.++++.++.+.+. ++.++..|...|...++|+|||||||||||++++++|++++.+++.++.+.+.      
T Consensus        53 ~~~di~g~~~~k~~l~~~~~-~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~  131 (495)
T TIGR01241        53 TFKDVAGIDEAKEELMEIVD-FLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGV  131 (495)
T ss_pred             CHHHhCCHHHHHHHHHHHHH-HHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhcc
Confidence            58999999999999987555 57788889999999999999999999999999999999999999999877642      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccch----------------------------------------------hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLTL----------------------------------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~~----------------------------------------------~a~~  106 (204)
                      +...++.+|..+  ..|+||||||+|.+..                                              .+++
T Consensus       132 ~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~  211 (495)
T TIGR01241       132 GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALL  211 (495)
T ss_pred             cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHh
Confidence            335677777776  3679999999988600                                              0888


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhc-------CCCHHHHHHhHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMR-------NKVPEIALRGLTDV  178 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~-------~~~~~~~~~~~~~~  178 (204)
                      ||||||..+.++.|+..+|..|+..++..........+..+... .+++++|+..++..       ..........+...
T Consensus       212 r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~~~~i~~~~l~~a  291 (495)
T TIGR01241       212 RPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEA  291 (495)
T ss_pred             cCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence            99999999999999999999999988765433222334444443 57999999987742       12222345555555


Q ss_pred             HHhh
Q 041769          179 FKIK  182 (204)
Q Consensus       179 ~~~~  182 (204)
                      ++..
T Consensus       292 ~~~~  295 (495)
T TIGR01241       292 IDRV  295 (495)
T ss_pred             HHHH
Confidence            5543

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.

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

Probab=99.88  E-value=5.1e-22  Score=157.30  Aligned_cols=159  Identities=16%  Similarity=0.272  Sum_probs=126.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      +|++|+|+++.|..- ..+..++.+++.|.+|   .|+.+|||||||||||++|+++|++...+++.+....+.+.    
T Consensus       119 t~ddViGqEeAK~kc-rli~~yLenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGd  194 (368)
T COG1223         119 TLDDVIGQEEAKRKC-RLIMEYLENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGD  194 (368)
T ss_pred             cHhhhhchHHHHHHH-HHHHHHhhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhh
Confidence            589999999887763 6778888888877654   36779999999999999999999999999999998876432    


Q ss_pred             --HHHHHHHHhc--CCCeEEEEecCCccchh-------------------------------------------hhhhcc
Q 041769           77 --MELRNMLIAT--KNKSILVVGDIDYLTLH-------------------------------------------ILLRSS  109 (204)
Q Consensus        77 --~~~~~~~~~~--~~~~il~iDeid~~~~~-------------------------------------------a~~r~~  109 (204)
                        ..+.+.+..+  ..|||+||||+|.+.++                                           +..| +
T Consensus       195 gar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiR-s  273 (368)
T COG1223         195 GARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIR-S  273 (368)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHH-h
Confidence              3455666655  37999999999999332                                           3444 4


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHhc
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLMR  164 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~~  164 (204)
                      ||...|+|..|+.+++..|++.|......+....+..+.. ..|+|+-+|.+.+++
T Consensus       274 RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvlK  329 (368)
T COG1223         274 RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLK  329 (368)
T ss_pred             hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHHH
Confidence            9999999999999999999998887665555555555554 378999999987753

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

Probab=99.88  E-value=7.9e-23  Score=162.62  Aligned_cols=163  Identities=18%  Similarity=0.187  Sum_probs=132.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +++++.|-.++.+.+.+.+...+-+++.|..+|+.+|.|+|+|||||||||.+|+++|+..+.-++.+-.|.+.      
T Consensus       175 ty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselvqkyvge  254 (435)
T KOG0729|consen  175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGE  254 (435)
T ss_pred             ccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhh
Confidence            57889999999999999999999999999999999999999999999999999999999999999888777763      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCcc---------------------------------------------chh-hhh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYL---------------------------------------------TLH-ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~---------------------------------------------~~~-a~~  106 (204)
                      +...++++|..+.  ..|+|||||+|.+                                             |++ |++
T Consensus       255 garmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatnrpdtldpall  334 (435)
T KOG0729|consen  255 GARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALL  334 (435)
T ss_pred             hHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCCCCCcCHhhc
Confidence            2245677777764  6799999999999                                             111 999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCC---CCCcHHHHHHHhhhCCCCHHHHHHHHhcC
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGIT---EHPLLTEIDELIEKANVTLADVVEQLMRN  165 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~i~~~~~~~  165 (204)
                      ||||+|++++|..|+.+.|..|++.+....   ...-.+-++.+|.+  -+++++..+|...
T Consensus       335 rpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpn--stgaeirsvctea  394 (435)
T KOG0729|consen  335 RPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPN--STGAEIRSVCTEA  394 (435)
T ss_pred             CCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCC--CcchHHHHHHHHh
Confidence            999999999999999999887776554432   22233444455543  3689999988643

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

Probab=99.88  E-value=7.1e-22  Score=162.90  Aligned_cols=175  Identities=17%  Similarity=0.276  Sum_probs=141.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh---
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN---   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~---   76 (204)
                      +|+++.|.+.+++++.+.+...+..++.|...+ ...+.|+|||||||||||.+|+++|++.|.+++.+.++.+..+   
T Consensus        90 ~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfg  169 (386)
T KOG0737|consen   90 SFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFG  169 (386)
T ss_pred             ehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhHH
Confidence            589999999999999999999999999997444 3567899999999999999999999999999999999988643   


Q ss_pred             ---HHHHHHHHhcC--CCeEEEEecCCcc--------------------------------------------ch-hhhh
Q 041769           77 ---MELRNMLIATK--NKSILVVGDIDYL--------------------------------------------TL-HILL  106 (204)
Q Consensus        77 ---~~~~~~~~~~~--~~~il~iDeid~~--------------------------------------------~~-~a~~  106 (204)
                         ..+..+|.-+.  .|++|||||+|.+                                            ++ .|.+
T Consensus       170 E~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~DlDeAii  249 (386)
T KOG0737|consen  170 EAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFDLDEAII  249 (386)
T ss_pred             HHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCccHHHHHH
Confidence               22333444333  7999999999998                                            11 1888


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhcCCCHHHHHHhHHHHHHhh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMRNKVPEIALRGLTDVFKIK  182 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  182 (204)
                      |  |++..+.++.|+..+|+.|+.-++..........+..+... .|||+.|+.++|     ...++..+.++++..
T Consensus       250 R--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC-----~~Aa~~~ire~~~~~  319 (386)
T KOG0737|consen  250 R--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELC-----RLAALRPIRELLVSE  319 (386)
T ss_pred             H--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHH-----HHHhHhHHHHHHHhc
Confidence            8  99999999999999999999988876544333344444443 689999999999     566677777777765

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

Probab=99.88  E-value=3.6e-21  Score=169.62  Aligned_cols=163  Identities=23%  Similarity=0.309  Sum_probs=137.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|+++.|.+..++.+.+.+...+..++.|...++..+.|+|||||||||||++|+++|.+++.+++.++.+++.+     
T Consensus       240 ~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGe  319 (494)
T COG0464         240 TLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGE  319 (494)
T ss_pred             ceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccch
Confidence            478899999999999999999999999999889999999999999999999999999999999999999887643     


Q ss_pred             -hHHHHHHHHhcC--CCeEEEEecCCcc------------------------------------------ch-hhhhhcc
Q 041769           76 -NMELRNMLIATK--NKSILVVGDIDYL------------------------------------------TL-HILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~~--~~~il~iDeid~~------------------------------------------~~-~a~~r~~  109 (204)
                       ...++++|..+.  .++||||||+|.+                                          .+ .+++|||
T Consensus       320 sek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~g  399 (494)
T COG0464         320 SEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPG  399 (494)
T ss_pred             HHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccC
Confidence             467888888875  7999999999999                                          00 1999999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCC--cHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHP--LLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |||..+.++.|+..++..++..++......  ....+..+.+ ..+++++|+..+|.
T Consensus       400 Rfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~  456 (494)
T COG0464         400 RFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVR  456 (494)
T ss_pred             ccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHH
Confidence            999999999999999999999888743322  1222333333 35689999999884

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

Probab=99.87  E-value=6.9e-22  Score=173.72  Aligned_cols=161  Identities=21%  Similarity=0.298  Sum_probs=133.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc------c
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF------K   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~------~   74 (204)
                      +|.++.|.++.++.+.+.+ .|+.++.-|..+|-..|+|++++||||||||.||+++|++.+.|+++++.++.      .
T Consensus       148 ~F~DVAG~dEakeel~EiV-dfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVGv  226 (596)
T COG0465         148 TFADVAGVDEAKEELSELV-DFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGV  226 (596)
T ss_pred             ChhhhcCcHHHHHHHHHHH-HHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcCC
Confidence            5889999999999985554 47788888999999999999999999999999999999999999999998885      2


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                      +...++..|..+.  .|||+||||+|..                 |+                             .|++
T Consensus       227 GAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~ALl  306 (596)
T COG0465         227 GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALL  306 (596)
T ss_pred             CcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccchHhhc
Confidence            4577888888885  5899999999999                 11                             2999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQL  162 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~  162 (204)
                      ||||||++|.++.|+-..|++|..-|...........+..+.. ..|++++++.+++
T Consensus       307 RpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~  363 (596)
T COG0465         307 RPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLL  363 (596)
T ss_pred             CCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhH
Confidence            9999999999999999999999886665432222223333333 2688999999987

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.87  E-value=1.5e-21  Score=170.45  Aligned_cols=158  Identities=21%  Similarity=0.279  Sum_probs=119.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------eEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------VYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------~~~~~~   70 (204)
                      +|++++|.+.+++++.+.+...+.+++.|...|+++++|+|||||||||||++++++|+.++.+          ++.+..
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            5889999999999999999999999999999999999999999999999999999999998654          222332


Q ss_pred             CCcc------ChHHHHHHHHhc------CCCeEEEEecCCccc----------------------h--------------
Q 041769           71 TTFK------ENMELRNMLIAT------KNKSILVVGDIDYLT----------------------L--------------  102 (204)
Q Consensus        71 ~~~~------~~~~~~~~~~~~------~~~~il~iDeid~~~----------------------~--------------  102 (204)
                      +.+.      ....++.+|..+      ..+++|||||+|.+.                      +              
T Consensus       260 ~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~A  339 (512)
T TIGR03689       260 PELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGA  339 (512)
T ss_pred             hhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEec
Confidence            3321      123445555544      258999999999870                      0              


Q ss_pred             --------hhhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHHHH
Q 041769          103 --------HILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       103 --------~a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~~~  162 (204)
                              .+++||||||.+|.|+.|+.+++..|+..|+.... ++...   +....+.+++++..++
T Consensus       340 TN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l-~l~~~---l~~~~g~~~a~~~al~  403 (512)
T TIGR03689       340 SNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSL-PLDAD---LAEFDGDREATAAALI  403 (512)
T ss_pred             cCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccC-CchHH---HHHhcCCCHHHHHHHH
Confidence                    08999999999999999999999999998876421 12222   2233455655555443

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.

>CHL00176 ftsH cell division protein; Validated

Probab=99.87  E-value=3.5e-21  Score=172.75  Aligned_cols=162  Identities=22%  Similarity=0.292  Sum_probs=129.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|+++.|.++.++.+.+.+ .++..+..|..+|...++|+||+||||||||++|+++|++++.+++.++.+.+.      
T Consensus       181 ~f~dv~G~~~~k~~l~eiv-~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~  259 (638)
T CHL00176        181 TFRDIAGIEEAKEEFEEVV-SFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGV  259 (638)
T ss_pred             CHHhccChHHHHHHHHHHH-HHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhh
Confidence            5899999999999986654 456778889999999999999999999999999999999999999999887652      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                      ....++..|..+.  .|+||||||+|.+.                 +                             .+++
T Consensus       260 ~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALl  339 (638)
T CHL00176        260 GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALL  339 (638)
T ss_pred             hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhh
Confidence            2345666676653  68899999998761                 0                             0788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||||||..+.++.|+..+|..|++.++..........+..+... .|++++|+.+++.
T Consensus       340 RpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvn  397 (638)
T CHL00176        340 RPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLN  397 (638)
T ss_pred             ccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHH
Confidence            99999999999999999999999988865433233344444443 6799999998774

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.87  E-value=3.1e-21  Score=164.01  Aligned_cols=161  Identities=21%  Similarity=0.235  Sum_probs=128.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+...+.++..|..+|+..+.|++||||||||||++|+++|+.++.+++.+..+.+..     
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~  199 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGE  199 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhH
Confidence            478999999999999999998888999999999999999999999999999999999999999988877654421     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                       ...+...|..+  ..+++|+|||+|.+.                 +                             .+++
T Consensus       200 ~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~  279 (364)
T TIGR01242       200 GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALL  279 (364)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhc
Confidence             12344555444  367899999998760                 0                             1778


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCC---CcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEH---PLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      |++||+..+.++.|+..++..|+..+......   .....+...+  .+++++++..++.
T Consensus       280 r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t--~g~sg~dl~~l~~  337 (364)
T TIGR01242       280 RPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMT--EGASGADLKAICT  337 (364)
T ss_pred             CcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHc--CCCCHHHHHHHHH
Confidence            88999999999999999999999887654322   2233444333  5789999998773

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.86  E-value=6.6e-22  Score=159.28  Aligned_cols=156  Identities=22%  Similarity=0.359  Sum_probs=126.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      .|++|.|.+..|+.+.+.+...+.-+++|.....|+ +|+|||||||||||.||+++|-+.+..+++++-+++.+     
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~Pw-rgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGE  209 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPW-RGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE  209 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcc-eeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhcc
Confidence            489999999999999999999999888887644443 68999999999999999999999999999999888632     


Q ss_pred             hHH-HHHHHHhc--CCCeEEEEecCCcc-------------------------------------------chh-hhhhc
Q 041769           76 NME-LRNMLIAT--KNKSILVVGDIDYL-------------------------------------------TLH-ILLRS  108 (204)
Q Consensus        76 ~~~-~~~~~~~~--~~~~il~iDeid~~-------------------------------------------~~~-a~~r~  108 (204)
                      ... +.++|..+  ..|+||||||||.+                                           .++ |+.| 
T Consensus       210 SEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRR-  288 (439)
T KOG0739|consen  210 SEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRR-  288 (439)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHH-
Confidence            233 34555555  47999999999998                                           122 6666 


Q ss_pred             cccceeEecCCCCHHHHHHHHHHhhCCCCCCcH-HHHHHHhhh-CCCCHHHHH
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLL-TEIDELIEK-ANVTLADVV  159 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~-~~l~~~~i~  159 (204)
                       ||+..|.+|.|....|..++..+++...+.+. ..+..+... .|+++++|.
T Consensus       289 -RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDis  340 (439)
T KOG0739|consen  289 -RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDIS  340 (439)
T ss_pred             -HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceE
Confidence             99999999999999999999988887766554 345555554 688888765

>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=99.84  E-value=7.1e-20  Score=143.45  Aligned_cols=134  Identities=19%  Similarity=0.285  Sum_probs=88.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++||+..+..+.-.+.......+        .-.+++||||||+||||||+.||++++.++...+...+....++.
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~--------~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~   93 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGE--------ALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLA   93 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS-----------EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHH
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCC--------CcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHH
Confidence            589999998887776434443322111        134699999999999999999999999999999888777778888


Q ss_pred             HHHHhcCCCeEEEEecCCccc-----------------------------------------------hhhhhhccccce
Q 041769           81 NMLIATKNKSILVVGDIDYLT-----------------------------------------------LHILLRSSCMDM  113 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~~-----------------------------------------------~~a~~r~~R~~~  113 (204)
                      .++.....+.|||||||+.++                                               +++.+| +||..
T Consensus        94 ~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLr-dRFgi  172 (233)
T PF05496_consen   94 AILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLR-DRFGI  172 (233)
T ss_dssp             HHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCC-TTSSE
T ss_pred             HHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHH-hhcce
Confidence            888888889999999999991                                               013333 49999


Q ss_pred             eEecCCCCHHHHHHHHHHhhCCCCCCcHHH
Q 041769          114 HIHMSYCTPFRFKMLASNYFGITEHPLLTE  143 (204)
Q Consensus       114 ~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~  143 (204)
                      ...+.+.+.++...|..+......-.+...
T Consensus       173 ~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~  202 (233)
T PF05496_consen  173 VLRLEFYSEEELAKIVKRSARILNIEIDED  202 (233)
T ss_dssp             EEE----THHHHHHHHHHCCHCTT-EE-HH
T ss_pred             ecchhcCCHHHHHHHHHHHHHHhCCCcCHH
Confidence            999999999999888877655444444333

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=99.83  E-value=2.3e-20  Score=150.91  Aligned_cols=162  Identities=19%  Similarity=0.239  Sum_probs=130.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      +|+++.|..++...+.+.+..++.++.++-.+|+.+|.|++||||||+|||.+++++|..+|.+++.+..+.+...    
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGE  209 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGE  209 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhccc
Confidence            5889999999999999999999999999999999999999999999999999999999999999999998887422    


Q ss_pred             --HHHHHHHHhcC--CCeEEEEecCCcc---------------------------------------------chh-hhh
Q 041769           77 --MELRNMLIATK--NKSILVVGDIDYL---------------------------------------------TLH-ILL  106 (204)
Q Consensus        77 --~~~~~~~~~~~--~~~il~iDeid~~---------------------------------------------~~~-a~~  106 (204)
                        .-+++.|..+.  .+||||+||||..                                             |+. +++
T Consensus       210 saRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtLdpaLl  289 (388)
T KOG0651|consen  210 SARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTLDPALL  289 (388)
T ss_pred             HHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCccccchhhc
Confidence              34566666553  6899999999998                                             111 999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCC---CCCcHHHHHHHhhhCCCCHHHHHHHHhc
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGIT---EHPLLTEIDELIEKANVTLADVVEQLMR  164 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~i~~~~~~  164 (204)
                      ||||+|+.++.|.|+...+..+...+....   .....+.+..+.  .+|.++++.+.|-.
T Consensus       290 RpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~--d~f~gad~rn~~tE  348 (388)
T KOG0651|consen  290 RPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLV--DGFNGADLRNVCTE  348 (388)
T ss_pred             CCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHH--hccChHHHhhhccc
Confidence            999999999999999998877665444322   222233444444  36688887776643

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.82  E-value=3.1e-19  Score=163.83  Aligned_cols=162  Identities=22%  Similarity=0.266  Sum_probs=128.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+...+.+++.+..+|+..+.|++||||||||||++++++|+.++.+++.++.+.+..     
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~  255 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGE  255 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccH
Confidence            588999999999999999998889999999999999999999999999999999999999999999988765421     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------h--------------------------hhhhhcc
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------L--------------------------HILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~--------------------------~a~~r~~  109 (204)
                       ...+..+|..+  ..+++|+|||+|.+.                 +                          .++.|++
T Consensus       256 ~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~g  335 (733)
T TIGR01243       256 SEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPG  335 (733)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCch
Confidence             24566677665  367899999998760                 0                          0677889


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHH
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQL  162 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~  162 (204)
                      ||+..+.++.|+..++..|+..+...........+..+.. ..+++++++..++
T Consensus       336 Rfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~  389 (733)
T TIGR01243       336 RFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALA  389 (733)
T ss_pred             hccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHH
Confidence            9999999999999999999887665432211122333333 2688999988766

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.

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

Probab=99.82  E-value=6.3e-19  Score=146.92  Aligned_cols=146  Identities=16%  Similarity=0.155  Sum_probs=107.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|+++.+.-.+-....+.+..++. +..+...|+..|.+++||||||||||.+++++|+++|.+++.++.+++.      
T Consensus       113 ~f~~~~g~~~~~p~f~dk~~~hi~-kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGE  191 (413)
T PLN00020        113 SFDNLVGGYYIAPAFMDKVAVHIA-KNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGE  191 (413)
T ss_pred             chhhhcCccccCHHHHHHHHHHHH-hhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCc
Confidence            355565554444444444333332 2334447788899999999999999999999999999999999998874      


Q ss_pred             ChHHHHHHHHhcC-------CCeEEEEecCCcc---------------------c---------h-----h---------
Q 041769           75 ENMELRNMLIATK-------NKSILVVGDIDYL---------------------T---------L-----H---------  103 (204)
Q Consensus        75 ~~~~~~~~~~~~~-------~~~il~iDeid~~---------------------~---------~-----~---------  103 (204)
                      +...+++.|..+.       .+|||||||||.+                     +         +     .         
T Consensus       192 sEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~V  271 (413)
T PLN00020        192 PGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPI  271 (413)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceE
Confidence            3467788887663       6999999999987                     0         0     0         


Q ss_pred             ------------hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh
Q 041769          104 ------------ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK  150 (204)
Q Consensus       104 ------------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  150 (204)
                                  +++|+||||..+  ..|+.++|..|++.++...... ...+..+.+.
T Consensus       272 IaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~  327 (413)
T PLN00020        272 IVTGNDFSTLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRDDGVS-REDVVKLVDT  327 (413)
T ss_pred             EEeCCCcccCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHc
Confidence                        888999999975  4799999999998877654332 3555555554

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.81  E-value=3.3e-19  Score=161.14  Aligned_cols=162  Identities=17%  Similarity=0.269  Sum_probs=126.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|+++.|.+..++.+.+.+. +...+..+..++...++|++|+||||||||+++++++++++.+++.++.+++.      
T Consensus       150 ~~~di~g~~~~~~~l~~i~~-~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~  228 (644)
T PRK10733        150 TFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV  228 (644)
T ss_pred             cHHHHcCHHHHHHHHHHHHH-HhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcc
Confidence            36788888888888866554 45566677778888889999999999999999999999999999999887642      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc-----------------hh-----------------------------hhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT-----------------LH-----------------------------ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~~-----------------------------a~~  106 (204)
                      ....++..|..+  ..|+||||||+|.+.                 ++                             +++
T Consensus       229 ~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~  308 (644)
T PRK10733        229 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALL  308 (644)
T ss_pred             cHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHh
Confidence            234566666665  368999999999870                 00                             889


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      ||||||+.+.++.|+..+|..|+..|+..........+..+.+ ..|++++|+.+++.
T Consensus       309 RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~  366 (644)
T PRK10733        309 RPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVN  366 (644)
T ss_pred             CCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHH
Confidence            9999999999999999999999998886543222223333443 36899999999874

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.78  E-value=1.3e-18  Score=166.35  Aligned_cols=135  Identities=15%  Similarity=0.142  Sum_probs=100.5

Q ss_pred             HHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh-----------------------------
Q 041769           26 KEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN-----------------------------   76 (204)
Q Consensus        26 ~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~-----------------------------   76 (204)
                      +.....+|...++|+||+||||||||.||+++|++.+.+++.++++++...                             
T Consensus      1619 kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~ 1698 (2281)
T CHL00206       1619 KPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLD 1698 (2281)
T ss_pred             cCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccc
Confidence            345577888899999999999999999999999999999999987765310                             


Q ss_pred             --------------------HHHHHHHHhc--CCCeEEEEecCCccc--------hh-----------------------
Q 041769           77 --------------------MELRNMLIAT--KNKSILVVGDIDYLT--------LH-----------------------  103 (204)
Q Consensus        77 --------------------~~~~~~~~~~--~~~~il~iDeid~~~--------~~-----------------------  103 (204)
                                          ..++.+|..+  ..||||+|||||.+.        ++                       
T Consensus      1699 ~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAA 1778 (2281)
T CHL00206       1699 TELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIAS 1778 (2281)
T ss_pred             hhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEe
Confidence                                0134456555  479999999999981        11                       


Q ss_pred             ---------hhhhccccceeEecCCCCHHHHHHHHHHhh---CCCCC---CcHHHHHHHhhhCCCCHHHHHHHH
Q 041769          104 ---------ILLRSSCMDMHIHMSYCTPFRFKMLASNYF---GITEH---PLLTEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       104 ---------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~---~~~~~---~~~~~~~~~~~~~~l~~~~i~~~~  162 (204)
                               |++||||||+.|.++.|+..+|+.++..+.   +....   .....++..  ..|+++||++++|
T Consensus      1779 TNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~--T~GfSGADLanLv 1850 (2281)
T CHL00206       1779 THIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSI--TMGSNARDLVALT 1850 (2281)
T ss_pred             CCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHh--CCCCCHHHHHHHH
Confidence                     999999999999999999888776654322   11111   112333333  3799999999976

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

Probab=99.78  E-value=2e-18  Score=138.42  Aligned_cols=127  Identities=20%  Similarity=0.277  Sum_probs=102.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++++|+++.=.+.....+.+        ...++|||||||.||||||+.+|+++|.++...+...+....++.
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e--------~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~gDla   95 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGE--------ALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLA   95 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCC--------CcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccChhhHH
Confidence            478899998888777444443332222        246799999999999999999999999999998888888889999


Q ss_pred             HHHHhcCCCeEEEEecCCccch-----------------------------------------------hhhhhccccce
Q 041769           81 NMLIATKNKSILVVGDIDYLTL-----------------------------------------------HILLRSSCMDM  113 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~~~-----------------------------------------------~a~~r~~R~~~  113 (204)
                      .++.....+.|+|||||+.+..                                               +..+| .||..
T Consensus        96 aiLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLr-dRFGi  174 (332)
T COG2255          96 AILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLR-DRFGI  174 (332)
T ss_pred             HHHhcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhH-HhcCC
Confidence            9999999999999999999911                                               13344 49999


Q ss_pred             eEecCCCCHHHHHHHHHHhhCCC
Q 041769          114 HIHMSYCTPFRFKMLASNYFGIT  136 (204)
Q Consensus       114 ~i~~~~p~~~~~~~i~~~~~~~~  136 (204)
                      ...+.+.+.++...|..+.....
T Consensus       175 ~~rlefY~~~eL~~Iv~r~a~~l  197 (332)
T COG2255         175 IQRLEFYTVEELEEIVKRSAKIL  197 (332)
T ss_pred             eeeeecCCHHHHHHHHHHHHHHh
Confidence            99999999999988887765433

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

Probab=99.76  E-value=9.3e-18  Score=154.19  Aligned_cols=162  Identities=19%  Similarity=0.176  Sum_probs=126.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc-----eEEeecCCc--
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD-----VYDLELTTF--   73 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~-----~~~~~~~~~--   73 (204)
                      +|++++|.+.++.++++.+...+..++.|..+++.+|+|+|||||||||||..|+++|..+...     ++.-..++.  
T Consensus       263 ~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~ls  342 (1080)
T KOG0732|consen  263 GFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCLS  342 (1080)
T ss_pred             CccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhhc
Confidence            5899999999999999999999999999999999999999999999999999999999998432     111111111  


Q ss_pred             ----cChHHHHHHHHhcC--CCeEEEEecCCcc-----------------ch--------------------------hh
Q 041769           74 ----KENMELRNMLIATK--NKSILVVGDIDYL-----------------TL--------------------------HI  104 (204)
Q Consensus        74 ----~~~~~~~~~~~~~~--~~~il~iDeid~~-----------------~~--------------------------~a  104 (204)
                          ....+++-.|+.+.  .|.|+|+||||-+                 |+                          .+
T Consensus       343 kwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpa  422 (1080)
T KOG0732|consen  343 KWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPA  422 (1080)
T ss_pred             cccCcHHHHHHHHHHHHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccccchh
Confidence                13456777787774  7999999999955                 00                          08


Q ss_pred             hhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh--hCCCCHHHHHHHH
Q 041769          105 LLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE--KANVTLADVVEQL  162 (204)
Q Consensus       105 ~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~--~~~l~~~~i~~~~  162 (204)
                      +.||||||+.++|+.|+...+..|...+...-..++...+-..+.  ..|+-+++++.+|
T Consensus       423 LRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLC  482 (1080)
T KOG0732|consen  423 LRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALC  482 (1080)
T ss_pred             hcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHH
Confidence            889999999999999999999888887665443444444333333  2577899988888

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

Probab=99.75  E-value=1.7e-17  Score=145.41  Aligned_cols=159  Identities=17%  Similarity=0.219  Sum_probs=129.7

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------ChH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------ENM   77 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------~~~   77 (204)
                      ++.|...+...+.+.+...+..+..+...|+++++|+|+|||||+|||.+++++|++.+..++.++...+.      +..
T Consensus       185 ~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~  264 (693)
T KOG0730|consen  185 DIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETES  264 (693)
T ss_pred             ccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHH
Confidence            45566667777777888888889999999999999999999999999999999999999999999988652      457


Q ss_pred             HHHHHHHhcC--C-CeEEEEecCCccc-----------------------------------------hh-hhhhccccc
Q 041769           78 ELRNMLIATK--N-KSILVVGDIDYLT-----------------------------------------LH-ILLRSSCMD  112 (204)
Q Consensus        78 ~~~~~~~~~~--~-~~il~iDeid~~~-----------------------------------------~~-a~~r~~R~~  112 (204)
                      ++++.|..+.  . |++++|||+|.+.                                         ++ ++.| ||||
T Consensus       265 ~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~alRR-gRfd  343 (693)
T KOG0730|consen  265 NLRKAFAEALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDPALRR-GRFD  343 (693)
T ss_pred             HHHHHHHHHhccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCccccChhhhc-CCCc
Confidence            7888888873  3 8999999999981                                         11 5555 9999


Q ss_pred             eeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHh-hhCCCCHHHHHHHHh
Q 041769          113 MHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELI-EKANVTLADVVEQLM  163 (204)
Q Consensus       113 ~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~i~~~~~  163 (204)
                      ..+.+..|+...|..+++.+...........+..+. ..+|+.++|+...|.
T Consensus       344 ~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL~~l~~  395 (693)
T KOG0730|consen  344 REVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADLAALCR  395 (693)
T ss_pred             ceeeecCCCchhHHHHHHHHHHhcCCcchhhHHHHHHHccchhHHHHHHHHH
Confidence            999999999999999998887655444333333333 358999999999884

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

Probab=99.70  E-value=1.3e-16  Score=135.68  Aligned_cols=162  Identities=16%  Similarity=0.219  Sum_probs=127.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      .|+++.|....++.+.+.+......+.+|..+.- ..+|+|+.||||+|||.|++++|.+.+..++.+.++++...    
T Consensus       151 ~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~-p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~Ge  229 (428)
T KOG0740|consen  151 GWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLRE-PVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYVGE  229 (428)
T ss_pred             cccCCcchhhHHHHhhhhhhhcccchHhhhcccc-ccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhccCh
Confidence            3789999999999998888877777777764432 35689999999999999999999999999999999987432    


Q ss_pred             --HHHHHHHHhc--CCCeEEEEecCCcc--------------------------------------------chh-hhhh
Q 041769           77 --MELRNMLIAT--KNKSILVVGDIDYL--------------------------------------------TLH-ILLR  107 (204)
Q Consensus        77 --~~~~~~~~~~--~~~~il~iDeid~~--------------------------------------------~~~-a~~r  107 (204)
                        ..++.+|.-+  .+|+|+||||+|++                                            .++ +.+|
T Consensus       230 ~eK~vralf~vAr~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~R  309 (428)
T KOG0740|consen  230 SEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEAARR  309 (428)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHHHHHHHH
Confidence              2334444444  38999999999998                                            111 6777


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCC-CcHHHHHHHhhh-CCCCHHHHHHHHhcC
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEH-PLLTEIDELIEK-ANVTLADVVEQLMRN  165 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~-~~~~~~~~~~~~-~~l~~~~i~~~~~~~  165 (204)
                        ||...+.++.|+.++|..++..++..... ....++..+++. .|+++.++..+|...
T Consensus       310 --rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea  367 (428)
T KOG0740|consen  310 --RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEA  367 (428)
T ss_pred             --HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHh
Confidence              99999999999999999999988876533 333556666653 689999999998653

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

Probab=99.69  E-value=6.6e-17  Score=138.80  Aligned_cols=137  Identities=20%  Similarity=0.284  Sum_probs=102.8

Q ss_pred             hHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-ceEEeecCCc------cChHHHHHHHHhcC----------
Q 041769           25 RKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-DVYDLELTTF------KENMELRNMLIATK----------   87 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-~~~~~~~~~~------~~~~~~~~~~~~~~----------   87 (204)
                      .++..+++|++..+|+|||||||||||.+||.|...++. .=-.++...+      .++.+++++|..+.          
T Consensus       244 pp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~S  323 (744)
T KOG0741|consen  244 PPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGESEENVRKLFADAEEEQRRLGANS  323 (744)
T ss_pred             CHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccC
Confidence            568889999999999999999999999999999998853 2223344443      24577888877762          


Q ss_pred             CCeEEEEecCCcc-----------------------------ch----------------hhhhhccccceeEecCCCCH
Q 041769           88 NKSILVVGDIDYL-----------------------------TL----------------HILLRSSCMDMHIHMSYCTP  122 (204)
Q Consensus        88 ~~~il~iDeid~~-----------------------------~~----------------~a~~r~~R~~~~i~~~~p~~  122 (204)
                      .-.||+|||||.+                             .+                .|++||||+..++++..|++
T Consensus       324 gLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE  403 (744)
T KOG0741|consen  324 GLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDE  403 (744)
T ss_pred             CceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCc
Confidence            3469999999998                             00                19999999999999999999


Q ss_pred             HHHHHHHHHhhCCC-------CCCcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          123 FRFKMLASNYFGIT-------EHPLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       123 ~~~~~i~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      .-|.+|+..+...-       ......+++.+.  ..||+|++..++.
T Consensus       404 ~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lT--KNfSGAEleglVk  449 (744)
T KOG0741|consen  404 KGRLQILKIHTKRMRENNKLSADVDLKELAALT--KNFSGAELEGLVK  449 (744)
T ss_pred             cCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHh--cCCchhHHHHHHH
Confidence            99877766554321       223334455444  4579999988774

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.64  E-value=5e-15  Score=124.32  Aligned_cols=92  Identities=22%  Similarity=0.351  Sum_probs=72.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|+++.++.+...+......        -..+.+++||||||+|||++|+++|+.++..+...+...+.....+.
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~   94 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKR--------GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLA   94 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhc--------CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHH
Confidence            4788999988888776555433221        12245799999999999999999999999988877766666666777


Q ss_pred             HHHHhcCCCeEEEEecCCcc
Q 041769           81 NMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~  100 (204)
                      ..+.....+.+|+|||++.+
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l  114 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRL  114 (328)
T ss_pred             HHHHhcccCCEEEEecHhhc
Confidence            77777778899999999987

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.62  E-value=1.8e-14  Score=117.22  Aligned_cols=131  Identities=15%  Similarity=0.169  Sum_probs=89.3

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCC---CceeEEECCCCCcHHHHHHHHHHhc-------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAW---KHSYFLYGPPGTGKSSLIAAMTNYL-------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~g~ll~Gp~GtGKT~la~~la~~~-------~~~~~~~~~~   71 (204)
                      +++++|.+.+|+++.+.+..... .......|...   ..+++|+||||||||++|+++|+.+       ..+++.++.+
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQI-NEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHH-HHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            57899999999999766644322 23334455542   2458999999999999999999875       2355666655


Q ss_pred             CccC------hHHHHHHHHhcCCCeEEEEecCCccch-----------h-------------------------h-----
Q 041769           72 TFKE------NMELRNMLIATKNKSILVVGDIDYLTL-----------H-------------------------I-----  104 (204)
Q Consensus        72 ~~~~------~~~~~~~~~~~~~~~il~iDeid~~~~-----------~-------------------------a-----  104 (204)
                      ++.+      ...+.+.|..+ .+++|||||+|.+.-           .                         .     
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a-~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~  162 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKA-LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLN  162 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhc-cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcC
Confidence            5422      23445566554 467999999997410           0                         1     


Q ss_pred             -hhhccccceeEecCCCCHHHHHHHHHHhhCC
Q 041769          105 -LLRSSCMDMHIHMSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus       105 -~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~  135 (204)
                       -++ +||+..+.|+.++..++..++.+++..
T Consensus       163 p~L~-sRf~~~i~f~~~~~~el~~Il~~~~~~  193 (261)
T TIGR02881       163 PGLR-SRFPISIDFPDYTVEELMEIAERMVKE  193 (261)
T ss_pred             hHHH-hccceEEEECCCCHHHHHHHHHHHHHH
Confidence             111 488888889888888888887776643

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.61  E-value=9.1e-15  Score=121.35  Aligned_cols=92  Identities=20%  Similarity=0.317  Sum_probs=72.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++..++.+...+.......        ..+.+++||||||||||++++++|+.++.++...+.........+.
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~~--------~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~   73 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMRQ--------EALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLA   73 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhcC--------CCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHH
Confidence            58999999999888766665433211        1245699999999999999999999999888777665555555666


Q ss_pred             HHHHhcCCCeEEEEecCCcc
Q 041769           81 NMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~  100 (204)
                      ..+.....+.+++|||++.+
T Consensus        74 ~~l~~~~~~~vl~iDEi~~l   93 (305)
T TIGR00635        74 AILTNLEEGDVLFIDEIHRL   93 (305)
T ss_pred             HHHHhcccCCEEEEehHhhh
Confidence            77777778889999999987

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.61  E-value=3.1e-14  Score=117.21  Aligned_cols=129  Identities=16%  Similarity=0.165  Sum_probs=93.1

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCC---CceeEEECCCCCcHHHHHHHHHHhcC-------CceEEeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAW---KHSYFLYGPPGTGKSSLIAAMTNYLN-------FDVYDLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~g~ll~Gp~GtGKT~la~~la~~~~-------~~~~~~~~~~~   73 (204)
                      +++|.+++|+++.+.+.. ...++.+...|+..   +.+++|+||||||||++|+++|+.+.       .+++.++.+++
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            689999999999776555 44555666778754   34799999999999999999998873       25777776544


Q ss_pred             c------ChHHHHHHHHhcCCCeEEEEecCCccc-------hh-------------------------------------
Q 041769           74 K------ENMELRNMLIATKNKSILVVGDIDYLT-------LH-------------------------------------  103 (204)
Q Consensus        74 ~------~~~~~~~~~~~~~~~~il~iDeid~~~-------~~-------------------------------------  103 (204)
                      .      +...+.++|..+ .+++|||||++.+.       .+                                     
T Consensus       102 ~~~~~g~~~~~~~~~~~~a-~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np  180 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRA-MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNP  180 (284)
T ss_pred             hHhhcccchHHHHHHHHHc-cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCH
Confidence            2      123445555554 45899999998540       00                                     


Q ss_pred             hhhhccccceeEecCCCCHHHHHHHHHHhhCCC
Q 041769          104 ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGIT  136 (204)
Q Consensus       104 a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~  136 (204)
                      ++.  .||+..+.|+.++.+++..|+.+++...
T Consensus       181 ~L~--sR~~~~i~fp~l~~edl~~I~~~~l~~~  211 (284)
T TIGR02880       181 GFS--SRVAHHVDFPDYSEAELLVIAGLMLKEQ  211 (284)
T ss_pred             HHH--hhCCcEEEeCCcCHHHHHHHHHHHHHHh
Confidence            222  3888899999999999888888777543

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.60  E-value=6.8e-14  Score=115.28  Aligned_cols=130  Identities=18%  Similarity=0.197  Sum_probs=92.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCC---ceeEEECCCCCcHHHHHHHHHHhcC-------CceEEeecCC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWK---HSYFLYGPPGTGKSSLIAAMTNYLN-------FDVYDLELTT   72 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~---~g~ll~Gp~GtGKT~la~~la~~~~-------~~~~~~~~~~   72 (204)
                      ++++|.+++|+++.+.+.. ..........|+..+   .+++|+||||||||++|+++|+.+.       .+++.++.++
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            4799999999999776644 333455666776543   2489999999999999999999762       2467777554


Q ss_pred             ccC------hHHHHHHHHhcCCCeEEEEecCCccc-------hh------------------------------------
Q 041769           73 FKE------NMELRNMLIATKNKSILVVGDIDYLT-------LH------------------------------------  103 (204)
Q Consensus        73 ~~~------~~~~~~~~~~~~~~~il~iDeid~~~-------~~------------------------------------  103 (204)
                      +..      ......++..+ .+++|||||++.+.       .+                                    
T Consensus       102 l~~~~~g~~~~~~~~~l~~a-~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~n  180 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKA-MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESN  180 (287)
T ss_pred             HHHHHhccchHHHHHHHHHc-cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcC
Confidence            321      12334455554 46899999998740       00                                    


Q ss_pred             -hhhhccccceeEecCCCCHHHHHHHHHHhhCCC
Q 041769          104 -ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGIT  136 (204)
Q Consensus       104 -a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~  136 (204)
                       ++.  +||+..+.|+.++..++..|+..++...
T Consensus       181 p~L~--sR~~~~i~F~~~t~~el~~I~~~~l~~~  212 (287)
T CHL00181        181 PGLS--SRIANHVDFPDYTPEELLQIAKIMLEEQ  212 (287)
T ss_pred             HHHH--HhCCceEEcCCcCHHHHHHHHHHHHHHh
Confidence             222  3999999999999999988888877543

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

Probab=99.59  E-value=5.4e-15  Score=119.81  Aligned_cols=169  Identities=21%  Similarity=0.312  Sum_probs=102.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC------ceEEeecCCcc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF------DVYDLELTTFK   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~------~~~~~~~~~~~   74 (204)
                      +|+++.|++.+.+.+.+.+..             ....++|||||||||||+.|+++|+++..      .++.++.++-+
T Consensus        34 t~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSder  100 (346)
T KOG0989|consen   34 TFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDER  100 (346)
T ss_pred             cHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccc
Confidence            477888887666655444432             11345999999999999999999999954      45666777655


Q ss_pred             ChHHHHHHHH---hc------------CCCeEEEEecCCccchh---hhhhc-cccceeEecC----CCCHHH---HHHH
Q 041769           75 ENMELRNMLI---AT------------KNKSILVVGDIDYLTLH---ILLRS-SCMDMHIHMS----YCTPFR---FKML  128 (204)
Q Consensus        75 ~~~~~~~~~~---~~------------~~~~il~iDeid~~~~~---a~~r~-~R~~~~i~~~----~p~~~~---~~~i  128 (204)
                      +..-.+..+.   ..            +...|++|||+|.+|-.   ++.|. .++..+..|.    +++.-.   .-..
T Consensus       101 Gisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC  180 (346)
T KOG0989|consen  101 GISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRC  180 (346)
T ss_pred             cccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhH
Confidence            4432222211   11            13479999999999554   44442 2333322222    222111   1112


Q ss_pred             HHH-hhCCCCCCcHHHHHHHhhhCCCC-HHHHHHHHhcCCCHHHHHHhHHHHHHhhhh
Q 041769          129 ASN-YFGITEHPLLTEIDELIEKANVT-LADVVEQLMRNKVPEIALRGLTDVFKIKQT  184 (204)
Q Consensus       129 ~~~-~~~~~~~~~~~~~~~~~~~~~l~-~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (204)
                      ... |.+.....+..++..++..+++. ..+...+++..++.+  +|+++.++|+...
T Consensus       181 ~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~Gd--LR~Ait~Lqsls~  236 (346)
T KOG0989|consen  181 QKFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGD--LRRAITTLQSLSL  236 (346)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCc--HHHHHHHHHHhhc
Confidence            222 33344556667888888887776 334555666666666  8888888887766

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

Probab=99.58  E-value=3e-14  Score=126.41  Aligned_cols=161  Identities=19%  Similarity=0.240  Sum_probs=111.7

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH---
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR---   80 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~---   80 (204)
                      +-+|.+++|++|++.+.-....+.       -.+.-++|+||||+|||+|+++||+.+|+.++.+...+++..++++   
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~-------~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKK-------LKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhcc-------CCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccc
Confidence            557888999999887654322221       1123388999999999999999999999999999999987665554   


Q ss_pred             ---------HHHHh---c-CCCeEEEEecCCccchh--------------------------------------------
Q 041769           81 ---------NMLIA---T-KNKSILVVGDIDYLTLH--------------------------------------------  103 (204)
Q Consensus        81 ---------~~~~~---~-~~~~il~iDeid~~~~~--------------------------------------------  103 (204)
                               ++++.   + ..+.++++||||.++.+                                            
T Consensus       397 RTYIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl  476 (782)
T COG0466         397 RTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSL  476 (782)
T ss_pred             ccccccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCcc
Confidence                     22222   2 25679999999999111                                            


Q ss_pred             -----hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCC------HHHHHHHHhcCCCHHHHH
Q 041769          104 -----ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVT------LADVVEQLMRNKVPEIAL  172 (204)
Q Consensus       104 -----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~------~~~i~~~~~~~~~~~~~~  172 (204)
                           +++  +|+.. |.+.-.+..+...|+.+|+-          ...++.+++.      ..+....+++...++..+
T Consensus       477 ~tIP~PLl--DRMEi-I~lsgYt~~EKl~IAk~~Li----------Pk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGV  543 (782)
T COG0466         477 DTIPAPLL--DRMEV-IRLSGYTEDEKLEIAKRHLI----------PKQLKEHGLKKGELTITDEAIKDIIRYYTREAGV  543 (782)
T ss_pred             ccCChHHh--cceee-eeecCCChHHHHHHHHHhcc----------hHHHHHcCCCccceeecHHHHHHHHHHHhHhhhh
Confidence                 222  36665 88888999999999998862          2223334444      233444566777788888


Q ss_pred             HhHHHHHHhhhh
Q 041769          173 RGLTDVFKIKQT  184 (204)
Q Consensus       173 ~~~~~~~~~~~~  184 (204)
                      |++.+.+...-.
T Consensus       544 R~LeR~i~ki~R  555 (782)
T COG0466         544 RNLEREIAKICR  555 (782)
T ss_pred             hHHHHHHHHHHH
Confidence            888877765433

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

Probab=99.56  E-value=3.5e-14  Score=118.91  Aligned_cols=62  Identities=31%  Similarity=0.529  Sum_probs=52.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~  100 (204)
                      .+++|||||||||||+|+.||+.++..+..+++.. .+..+++++++.+      .+..|||+|||+.+
T Consensus        49 ~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~-~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRf  116 (436)
T COG2256          49 HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT-SGVKDLREIIEEARKNRLLGRRTILFLDEIHRF  116 (436)
T ss_pred             ceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc-ccHHHHHHHHHHHHHHHhcCCceEEEEehhhhc
Confidence            45999999999999999999999999999887753 4456777777776      25789999999999

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

Probab=99.55  E-value=1.4e-13  Score=121.93  Aligned_cols=173  Identities=17%  Similarity=0.244  Sum_probs=115.7

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHH---
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMEL---   79 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~---   79 (204)
                      ++-+|..++|++|++.+.--.-       .|-..+.-+.|+||||+|||+++++||+.+|+.++.++..++...+++   
T Consensus       411 eDHYgm~dVKeRILEfiAV~kL-------rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKL-------RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhh-------cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            3567888899988776642211       122334558899999999999999999999999999998887554443   


Q ss_pred             ------------HHHHHhcC-CCeEEEEecCCccc---------------------------------hh----------
Q 041769           80 ------------RNMLIATK-NKSILVVGDIDYLT---------------------------------LH----------  103 (204)
Q Consensus        80 ------------~~~~~~~~-~~~il~iDeid~~~---------------------------------~~----------  103 (204)
                                  .+.+.... .+.+++|||+|.+.                                 +|          
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~  563 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANV  563 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccc
Confidence                        23333332 56799999999991                                 00          


Q ss_pred             -----hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHH------HHHHhcCCCHHHHH
Q 041769          104 -----ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADV------VEQLMRNKVPEIAL  172 (204)
Q Consensus       104 -----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i------~~~~~~~~~~~~~~  172 (204)
                           ..++ +|+.. |.++-...++.-.|+.+|+          +...+..+|++++++      ...++.+..++..+
T Consensus       564 idtIP~pLl-DRMEv-IelsGYv~eEKv~IA~~yL----------ip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGV  631 (906)
T KOG2004|consen  564 IDTIPPPLL-DRMEV-IELSGYVAEEKVKIAERYL----------IPQALKDCGLKPEQVKISDDALLALIERYCREAGV  631 (906)
T ss_pred             cccCChhhh-hhhhe-eeccCccHHHHHHHHHHhh----------hhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhH
Confidence                 2222 26655 7777778888778888775          233445566665432      22445566688888


Q ss_pred             HhHHHHHHhhhhchhhhhHHHH
Q 041769          173 RGLTDVFKIKQTENDESKAKEA  194 (204)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~  194 (204)
                      |++.+-++.......-+-+++.
T Consensus       632 RnLqk~iekI~Rk~Al~vv~~~  653 (906)
T KOG2004|consen  632 RNLQKQIEKICRKVALKVVEGE  653 (906)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            9888888866655555444433

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

Probab=99.55  E-value=2.3e-14  Score=120.31  Aligned_cols=128  Identities=17%  Similarity=0.250  Sum_probs=90.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----h
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----N   76 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----~   76 (204)
                      |++|++.+.....|..........+.     ...+=+.++||||||||||.+|+-||+..|..+..+...++..     .
T Consensus       354 l~~ViL~psLe~Rie~lA~aTaNTK~-----h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaV  428 (630)
T KOG0742|consen  354 LEGVILHPSLEKRIEDLAIATANTKK-----HQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAV  428 (630)
T ss_pred             cCCeecCHHHHHHHHHHHHHhccccc-----ccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHH
Confidence            67888888777777444333322111     1111245999999999999999999999999999888877632     2


Q ss_pred             HHHHHHHHhc---CCCeEEEEecCCcc---------------chhhhh-----------------h--------ccccce
Q 041769           77 MELRNMLIAT---KNKSILVVGDIDYL---------------TLHILL-----------------R--------SSCMDM  113 (204)
Q Consensus        77 ~~~~~~~~~~---~~~~il~iDeid~~---------------~~~a~~-----------------r--------~~R~~~  113 (204)
                      ..+-++|+=.   .++-+|||||+|.+               ++++++                 |        .+|+|.
T Consensus       429 TkiH~lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdlDsAV~DRide  508 (630)
T KOG0742|consen  429 TKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAVNDRIDE  508 (630)
T ss_pred             HHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccchhHHHHhhhhh
Confidence            3445555544   36779999999998               222211                 1        369999


Q ss_pred             eEecCCCCHHHHHHHHHHhhC
Q 041769          114 HIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       114 ~i~~~~p~~~~~~~i~~~~~~  134 (204)
                      .++|+.|..++|..++..|+.
T Consensus       509 ~veFpLPGeEERfkll~lYln  529 (630)
T KOG0742|consen  509 VVEFPLPGEEERFKLLNLYLN  529 (630)
T ss_pred             eeecCCCChHHHHHHHHHHHH
Confidence            999999999999887766654

>PRK04195 replication factor C large subunit; Provisional

Probab=99.54  E-value=1.4e-13  Score=121.17  Aligned_cols=92  Identities=24%  Similarity=0.494  Sum_probs=73.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|+++++..+..++..+..        |.+ +.+++||||||+|||++|+++|+.++..++.+++++......+.
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~~--------g~~-~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~   82 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWLK--------GKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIE   82 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHhc--------CCC-CCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHH
Confidence            478899999999888887776542        222 56799999999999999999999999999999998876665555


Q ss_pred             HHHHhc--------CCCeEEEEecCCccc
Q 041769           81 NMLIAT--------KNKSILVVGDIDYLT  101 (204)
Q Consensus        81 ~~~~~~--------~~~~il~iDeid~~~  101 (204)
                      ..+...        ....+|+|||+|.++
T Consensus        83 ~~i~~~~~~~sl~~~~~kvIiIDEaD~L~  111 (482)
T PRK04195         83 RVAGEAATSGSLFGARRKLILLDEVDGIH  111 (482)
T ss_pred             HHHHHhhccCcccCCCCeEEEEecCcccc
Confidence            554433        146799999999983

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=99.50  E-value=8.2e-14  Score=101.05  Aligned_cols=61  Identities=30%  Similarity=0.627  Sum_probs=51.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------ChHHHHHHHHhc--CC-CeEEEEecCCcc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------ENMELRNMLIAT--KN-KSILVVGDIDYL  100 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------~~~~~~~~~~~~--~~-~~il~iDeid~~  100 (204)
                      ++|+||||+|||++++.+|+.++.+++.++...+.      ....+...|..+  .. +++|+|||+|.+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l   70 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKL   70 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhc
Confidence            68999999999999999999999999999998764      234566666665  23 799999999998

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>TIGR00763 lon ATP-dependent protease La

Probab=99.46  E-value=2e-12  Score=119.68  Aligned_cols=120  Identities=24%  Similarity=0.277  Sum_probs=84.2

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh-------
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN-------   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~-------   76 (204)
                      +++|++++++.+.+.+......       +...+.+++|+||||||||++|+++|+.++.+++.+++++....       
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~  393 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHR  393 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCC
Confidence            4778888888876655433211       11223469999999999999999999999999999887654221       


Q ss_pred             --------HHHHHHHHhc-CCCeEEEEecCCccch---------------------------------h-----------
Q 041769           77 --------MELRNMLIAT-KNKSILVVGDIDYLTL---------------------------------H-----------  103 (204)
Q Consensus        77 --------~~~~~~~~~~-~~~~il~iDeid~~~~---------------------------------~-----------  103 (204)
                              ..+.+.+... ..+.+++|||+|.+.-                                 +           
T Consensus       394 ~~~~g~~~g~i~~~l~~~~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~  473 (775)
T TIGR00763       394 RTYVGAMPGRIIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSI  473 (775)
T ss_pred             CceeCCCCchHHHHHHHhCcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCc
Confidence                    2333444433 3456999999998711                                 0           


Q ss_pred             -----hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 -----ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 -----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                           +++  +|++ .+.|+.++..++..|+.+|+
T Consensus       474 ~~i~~~L~--~R~~-vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       474 DTIPRPLL--DRME-VIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             hhCCHHHh--CCee-EEecCCCCHHHHHHHHHHHH
Confidence                 333  3885 58999999999988888775

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.

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

Probab=99.46  E-value=4.1e-12  Score=113.01  Aligned_cols=183  Identities=15%  Similarity=0.220  Sum_probs=116.2

Q ss_pred             cccccCChhHHHHHHHHHHHHHHh-----------------HHHHH----HhCCCCCceeEEECCCCCcHHHHHHHHHHh
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKR-----------------KEFYR----NVGKAWKHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~-----------------~~~~~----~~~~~~~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |.++.+++.+...++.++..|-..                 ++.+.    ..+-|..+-+||+||||-||||||+.+|+.
T Consensus       270 FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  270 FTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             HHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHHHHHHHh
Confidence            678888999999998888776321                 01111    112233345899999999999999999999


Q ss_pred             cCCceEEeecCCccChHHHHHHHHhc----------CCCeEEEEecCCccc---hh------------------------
Q 041769           61 LNFDVYDLELTTFKENMELRNMLIAT----------KNKSILVVGDIDYLT---LH------------------------  103 (204)
Q Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~il~iDeid~~~---~~------------------------  103 (204)
                      .|..++.+|+++-++...+.+.+..+          .+|.+|++||||-..   ++                        
T Consensus       350 aGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~r  429 (877)
T KOG1969|consen  350 AGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKR  429 (877)
T ss_pred             cCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcHHHHHHHHHHHHhhcchhhcCcccchhhh
Confidence            99999999999998887777666554          478999999999872   11                        


Q ss_pred             ------hhhhccccceeEecCCCCHHHHHHHHHH--hhCCCCCCcHHHHHHHhhhCCCC--HHHHHHHH-hcCCCHHHHH
Q 041769          104 ------ILLRSSCMDMHIHMSYCTPFRFKMLASN--YFGITEHPLLTEIDELIEKANVT--LADVVEQL-MRNKVPEIAL  172 (204)
Q Consensus       104 ------a~~r~~R~~~~i~~~~p~~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~~~l~--~~~i~~~~-~~~~~~~~~~  172 (204)
                            .+.|| -++..=..-.|.-+.++.++..  |.+.....+..++..+|.++++.  ...+..+| +..++-+.++
T Consensus       430 kkkr~~~L~RP-IICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~~aL~~L~el~~~DIRsCI  508 (877)
T KOG1969|consen  430 KKKRSKLLTRP-IICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADSKALNALCELTQNDIRSCI  508 (877)
T ss_pred             hhhccccccCC-EEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCHHHHHHHHHHhcchHHHHH
Confidence                  13333 1111112222333333332211  11222334557888888887775  44555555 4567888888


Q ss_pred             HhHHHHHHhhhhc
Q 041769          173 RGLTDVFKIKQTE  185 (204)
Q Consensus       173 ~~~~~~~~~~~~~  185 (204)
                      +.+.-+-...++.
T Consensus       509 NtLQfLa~~~~r~  521 (877)
T KOG1969|consen  509 NTLQFLASNVDRR  521 (877)
T ss_pred             HHHHHHHHhcccc
Confidence            8884333333333

>PRK06893 DNA replication initiation factor; Validated

Probab=99.46  E-value=1.7e-12  Score=103.80  Aligned_cols=61  Identities=16%  Similarity=0.317  Sum_probs=44.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..++||||||||||||++++|+++   +..+.++++....  ....+.+....+..+|+|||++.+
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~--~~~~~~~~~~~~~dlLilDDi~~~  103 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQ--YFSPAVLENLEQQDLVCLDDLQAV  103 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhh--hhhHHHHhhcccCCEEEEeChhhh
Confidence            348999999999999999999986   4566666654321  111244555566789999999986

>PLN03025 replication factor C subunit; Provisional

Probab=99.46  E-value=1.3e-12  Score=109.33  Aligned_cols=90  Identities=21%  Similarity=0.266  Sum_probs=61.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-C----CceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-N----FDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-~----~~~~~~~~~~~~~   75 (204)
                      +|++++|++++...+...+.    ..         ...+++||||||||||++|+++|+++ +    ..++.++.++..+
T Consensus        11 ~l~~~~g~~~~~~~L~~~~~----~~---------~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~   77 (319)
T PLN03025         11 KLDDIVGNEDAVSRLQVIAR----DG---------NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRG   77 (319)
T ss_pred             CHHHhcCcHHHHHHHHHHHh----cC---------CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccccccc
Confidence            47888888776665533222    11         12359999999999999999999997 2    3466777776555


Q ss_pred             hHHHHHHHHhc---------CCCeEEEEecCCccchh
Q 041769           76 NMELRNMLIAT---------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        76 ~~~~~~~~~~~---------~~~~il~iDeid~~~~~  103 (204)
                      ...+++.+...         ....+++|||+|.++.+
T Consensus        78 ~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~  114 (319)
T PLN03025         78 IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSG  114 (319)
T ss_pred             HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHH
Confidence            55555443321         24679999999999554

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=1e-12  Score=119.12  Aligned_cols=165  Identities=16%  Similarity=0.254  Sum_probs=118.1

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCC---Cc-eeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAW---KH-SYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKE   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~-g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~   75 (204)
                      +.|+|++.....+.+.+...        +.|+..   |. .++|.||+|+|||.+|++||..+.   ..++.+|||.++.
T Consensus       491 ~rViGQd~AV~avs~aIrra--------RaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRA--------RAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHHH--------hcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH
Confidence            45778876666665555422        123321   23 388999999999999999999996   7999999999998


Q ss_pred             hHHHHHHHHhcC------------------CCeEEEEecCCcc----------------------------------chh
Q 041769           76 NMELRNMLIATK------------------NKSILVVGDIDYL----------------------------------TLH  103 (204)
Q Consensus        76 ~~~~~~~~~~~~------------------~~~il~iDeid~~----------------------------------~~~  103 (204)
                      ...+.+++...+                  +++||++|||+..                                  |.+
T Consensus       563 kHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN  642 (786)
T COG0542         563 KHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSN  642 (786)
T ss_pred             HHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecc
Confidence            888888777752                  4689999999998                                  000


Q ss_pred             ------------------------------hhhhc---cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh
Q 041769          104 ------------------------------ILLRS---SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK  150 (204)
Q Consensus       104 ------------------------------a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  150 (204)
                                                    ..+||   +|+|.+|.|...+......|....+        .++...+..
T Consensus       643 ~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L--------~~l~~~L~~  714 (786)
T COG0542         643 AGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQL--------NRLAKRLAE  714 (786)
T ss_pred             cchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHH--------HHHHHHHHh
Confidence                                          33334   6999999999999999888887765        455555554


Q ss_pred             CCCC---HHHHHHHHhcC-CCHHHHHHhHHHHHHhhh
Q 041769          151 ANVT---LADVVEQLMRN-KVPEIALRGLTDVFKIKQ  183 (204)
Q Consensus       151 ~~l~---~~~i~~~~~~~-~~~~~~~~~~~~~~~~~~  183 (204)
                      .+++   ..++..++..+ .++....|-+.+.++..-
T Consensus       715 ~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~~i  751 (786)
T COG0542         715 RGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQEI  751 (786)
T ss_pred             CCceEEECHHHHHHHHHhccCCCcCchHHHHHHHHHH
Confidence            4444   45556666543 467777777777776543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.44  E-value=1.9e-12  Score=112.33  Aligned_cols=166  Identities=16%  Similarity=0.242  Sum_probs=92.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+...+.    ...        .+..++|+||+|||||++|+.+|+.+++                 
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~----~~r--------i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~   83 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALK----SGK--------IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLE   83 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHH----cCC--------CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHH
Confidence            58899999877666544433    111        1345899999999999999999999875                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhhc-cccceeEecCCCC--HHH
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLRS-SCMDMHIHMSYCT--PFR  124 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r~-~R~~~~i~~~~p~--~~~  124 (204)
                             .++.++.+.-.+...++++....      ....|++|||+|.++.   +++++. ......+.|..-+  ...
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~k  163 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHK  163 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhh
Confidence                   24455554333344555544332      2567999999999944   466552 1111122222222  122


Q ss_pred             -HHHHHHHhhC-----CCCCCcHHHHHHHhhhCCC--CHHHHHHHHhcC--CCHHHHHHhHHHHH
Q 041769          125 -FKMLASNYFG-----ITEHPLLTEIDELIEKANV--TLADVVEQLMRN--KVPEIALRGLTDVF  179 (204)
Q Consensus       125 -~~~i~~~~~~-----~~~~~~~~~~~~~~~~~~l--~~~~i~~~~~~~--~~~~~~~~~~~~~~  179 (204)
                       ...|.+|...     .....+...+..++...++  +++.+ ..+.+.  ++.+.+++.+.+.+
T Consensus       164 I~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL-~~Ia~~S~Gd~RdAL~lLeq~i  227 (484)
T PRK14956        164 IPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGL-FWIAKKGDGSVRDMLSFMEQAI  227 (484)
T ss_pred             ccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHcCChHHHHHHHHHHHH
Confidence             1345554221     1122333445566665555  44444 444333  35555555554444

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

Probab=99.44  E-value=2.4e-12  Score=102.40  Aligned_cols=125  Identities=22%  Similarity=0.315  Sum_probs=101.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      .+++++|.+.+++.+.++...|+....         ..++||||+.|||||++++++..++   |..++.++-.++..-.
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~G~p---------annvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~   95 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQGLP---------ANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLP   95 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHcCCC---------CcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHH
Confidence            368899999999999999998886433         4569999999999999999999988   7788888888888888


Q ss_pred             HHHHHHHhcCCCeEEEEecCCcc----------------------------chh--------------------------
Q 041769           78 ELRNMLIATKNKSILVVGDIDYL----------------------------TLH--------------------------  103 (204)
Q Consensus        78 ~~~~~~~~~~~~~il~iDeid~~----------------------------~~~--------------------------  103 (204)
                      .+...+...+..-|||+||+.--                            |.+                          
T Consensus        96 ~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~  175 (249)
T PF05673_consen   96 ELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTI  175 (249)
T ss_pred             HHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCCCccccCcchHH
Confidence            88888888888899999997643                            000                          


Q ss_pred             --hhhhccccceeEecCCCCHHHHHHHHHHhhC
Q 041769          104 --ILLRSSCMDMHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       104 --a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                        .+--..||...+.|..|+.++...|...+..
T Consensus       176 eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~  208 (249)
T PF05673_consen  176 EEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAE  208 (249)
T ss_pred             HHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHH
Confidence              1111358999999999999998888887764

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.42  E-value=4.8e-12  Score=110.74  Aligned_cols=90  Identities=26%  Similarity=0.490  Sum_probs=62.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+..    .+..+.        .+.+++|||||||||||+|+++|+.++.                 
T Consensus        12 ~~~divGq~~i~~~L~~----~i~~~~--------l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~   79 (472)
T PRK14962         12 TFSEVVGQDHVKKLIIN----ALKKNS--------ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRS   79 (472)
T ss_pred             CHHHccCcHHHHHHHHH----HHHcCC--------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHH
Confidence            58899999777555433    222221        2456899999999999999999999864                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .++.++++.-.+...++++....      ....+++|||+|.++-
T Consensus        80 i~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~  131 (472)
T PRK14962         80 IDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTK  131 (472)
T ss_pred             HhcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHH
Confidence                   46666665444445555554433      2457999999999843

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.42  E-value=4.6e-12  Score=111.85  Aligned_cols=95  Identities=17%  Similarity=0.412  Sum_probs=69.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++++|++.+.+.+...+.    ...        .+..+||+||+|+|||++|+++|+.+++.                
T Consensus        14 ~f~divGq~~v~~~L~~~~~----~~~--------l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~   81 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALD----QQY--------LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCRE   81 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHH----hCC--------CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHH
Confidence            58999999887776655443    111        24458999999999999999999999642                


Q ss_pred             --------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccchh---hhhh
Q 041769           65 --------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTLH---ILLR  107 (204)
Q Consensus        65 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~~---a~~r  107 (204)
                              ++.++.++-.+..++++++...      .+..|++|||+|.++.+   ++++
T Consensus        82 i~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk  141 (509)
T PRK14958         82 IDEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLK  141 (509)
T ss_pred             HhcCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHH
Confidence                    6667766545556677766553      24679999999999553   5555

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

Probab=99.41  E-value=1.8e-12  Score=119.30  Aligned_cols=94  Identities=18%  Similarity=0.335  Sum_probs=72.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccCh--------HHHHHHHHhcC--CCeEEEEec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKEN--------MELRNMLIATK--NKSILVVGD   96 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~~--------~~~~~~~~~~~--~~~il~iDe   96 (204)
                      ..+++|+||||||||++++++|+.+          +..++.++++.+...        ..+.+++..+.  .+.||||||
T Consensus       203 ~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDE  282 (731)
T TIGR02639       203 KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDE  282 (731)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEec
Confidence            4569999999999999999999987          778888887765421        45677777653  578999999


Q ss_pred             CCccc---------h--------------------------------h-hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769           97 IDYLT---------L--------------------------------H-ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus        97 id~~~---------~--------------------------------~-a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                      +|.+.         .                                + ++.|  ||. .|.++.|+.++...|++...
T Consensus       283 ih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       283 IHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHH
Confidence            99771         1                                0 5555  897 58999999998877776543

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.41  E-value=1.4e-11  Score=102.77  Aligned_cols=87  Identities=18%  Similarity=0.240  Sum_probs=62.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++.++..+...+.    ..        ..+..++|+||||+|||++++++++.++.+++.++.+. .....++
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~----~~--------~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~~~~~i~   85 (316)
T PHA02544         19 TIDECILPAADKETFKSIVK----KG--------RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-CRIDFVR   85 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHh----cC--------CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-ccHHHHH
Confidence            47889999888777655543    11        11344777999999999999999999999999998876 2222222


Q ss_pred             HHHHh----c---CCCeEEEEecCCcc
Q 041769           81 NMLIA----T---KNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~----~---~~~~il~iDeid~~  100 (204)
                      ..+..    .   ..+.+|+|||+|.+
T Consensus        86 ~~l~~~~~~~~~~~~~~vliiDe~d~l  112 (316)
T PHA02544         86 NRLTRFASTVSLTGGGKVIIIDEFDRL  112 (316)
T ss_pred             HHHHHHHHhhcccCCCeEEEEECcccc
Confidence            22211    1   35789999999988

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

Probab=99.39  E-value=1.7e-12  Score=106.22  Aligned_cols=123  Identities=19%  Similarity=0.358  Sum_probs=83.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhC-----CCCCceeEEECCCCCcHHHHHHHHHHhcCC---------ceEE
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVG-----KAWKHSYFLYGPPGTGKSSLIAAMTNYLNF---------DVYD   67 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-----~~~~~g~ll~Gp~GtGKT~la~~la~~~~~---------~~~~   67 (204)
                      |++++.....|+++.......+    .|.+.+     +.+.+-+|++||||||||+|.+++|+.+..         .++.
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l----~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE  216 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASAL----LFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE  216 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHH----HHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE
Confidence            7888888888888876654433    233333     344566999999999999999999999942         3445


Q ss_pred             eecCCc------cChHHHHHHHHhc-------CCCeEEEEecCCccchh-------------------------------
Q 041769           68 LELTTF------KENMELRNMLIAT-------KNKSILVVGDIDYLTLH-------------------------------  103 (204)
Q Consensus        68 ~~~~~~------~~~~~~~~~~~~~-------~~~~il~iDeid~~~~~-------------------------------  103 (204)
                      ++..++      .+...+.++|++.       ..-..++|||+++++..                               
T Consensus       217 inshsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~  296 (423)
T KOG0744|consen  217 INSHSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYP  296 (423)
T ss_pred             EehhHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCC
Confidence            554443      1223344444443       23457789999998110                               


Q ss_pred             ----------------hhhhccccceeEecCCCCHHHHHHHHH
Q 041769          104 ----------------ILLRSSCMDMHIHMSYCTPFRFKMLAS  130 (204)
Q Consensus       104 ----------------a~~r~~R~~~~i~~~~p~~~~~~~i~~  130 (204)
                                      |+.-  |.|....++.|+...+..|..
T Consensus       297 NvliL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~Ilk  337 (423)
T KOG0744|consen  297 NVLILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILK  337 (423)
T ss_pred             CEEEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHH
Confidence                            4444  999999999999988766544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.39  E-value=1.4e-11  Score=106.58  Aligned_cols=89  Identities=24%  Similarity=0.378  Sum_probs=62.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++..... ...+...+...         ...+++|+||||||||++|+++++.++..++.++.... +...++
T Consensus        10 ~l~d~vGq~~~v~~-~~~L~~~i~~~---------~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~-~~~~ir   78 (413)
T PRK13342         10 TLDEVVGQEHLLGP-GKPLRRMIEAG---------RLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS-GVKDLR   78 (413)
T ss_pred             CHHHhcCcHHHhCc-chHHHHHHHcC---------CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc-cHHHHH
Confidence            47888888765433 11122222211         13469999999999999999999999999999887643 334455


Q ss_pred             HHHHhc------CCCeEEEEecCCcc
Q 041769           81 NMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~~------~~~~il~iDeid~~  100 (204)
                      .++...      ....+|+|||+|.+
T Consensus        79 ~ii~~~~~~~~~g~~~vL~IDEi~~l  104 (413)
T PRK13342         79 EVIEEARQRRSAGRRTILFIDEIHRF  104 (413)
T ss_pred             HHHHHHHHhhhcCCceEEEEechhhh
Confidence            554443      26689999999998

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

Probab=99.39  E-value=6.8e-12  Score=115.08  Aligned_cols=164  Identities=12%  Similarity=0.264  Sum_probs=103.9

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCc-eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKH-SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRN   81 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~-g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~   81 (204)
                      .|+|+++.++.+.+.+.....      .+.. ..|. .++|+||||||||++|+++|+.++.+++.++++.+.....+.+
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~------gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~  532 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRA------GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSR  532 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhc------cccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHH
Confidence            478888888877776654321      1111 1233 4999999999999999999999999999999987654322222


Q ss_pred             HHHh------------------cCCCeEEEEecCCccchh----------------------------------------
Q 041769           82 MLIA------------------TKNKSILVVGDIDYLTLH----------------------------------------  103 (204)
Q Consensus        82 ~~~~------------------~~~~~il~iDeid~~~~~----------------------------------------  103 (204)
                      ++..                  ..+.+||+|||+|.+...                                        
T Consensus       533 LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~  612 (758)
T PRK11034        533 LIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRET  612 (758)
T ss_pred             HcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHH
Confidence            2221                  135689999999999110                                        


Q ss_pred             ---------------------hhhhc---cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCC---HH
Q 041769          104 ---------------------ILLRS---SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVT---LA  156 (204)
Q Consensus       104 ---------------------a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~---~~  156 (204)
                                           ..++|   +|+|..|.|...+......|+..++        .++...+...++.   ..
T Consensus       613 ~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l--------~~~~~~l~~~~i~l~~~~  684 (758)
T PRK11034        613 ERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFI--------VELQAQLDQKGVSLEVSQ  684 (758)
T ss_pred             hhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHH--------HHHHHHHHHCCCCceECH
Confidence                                 11233   6888888888888888877776654        2333444433333   33


Q ss_pred             HHHHHHh-cCCCHHHHHHhHHHHHHh
Q 041769          157 DVVEQLM-RNKVPEIALRGLTDVFKI  181 (204)
Q Consensus       157 ~i~~~~~-~~~~~~~~~~~~~~~~~~  181 (204)
                      .+..++. ...++....|.+.+.++.
T Consensus       685 ~~~~~l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        685 EARDWLAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHH
Confidence            3444443 344555555555555553

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.38  E-value=1.2e-11  Score=110.61  Aligned_cols=90  Identities=19%  Similarity=0.424  Sum_probs=65.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+...+...+.    ..        ..+.++||+||+|+|||++|+++|+.+++                 
T Consensus        13 tFddVIGQe~vv~~L~~aI~----~g--------rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~   80 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALE----RG--------RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKA   80 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHH
Confidence            58999999877666644443    11        12456899999999999999999999865                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .++.++.++-.....+++++...      .+..|++|||+|.++.
T Consensus        81 I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~  132 (702)
T PRK14960         81 VNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLST  132 (702)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCH
Confidence                   45566665444556677766554      2567999999999943

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.38  E-value=6.3e-12  Score=113.58  Aligned_cols=95  Identities=19%  Similarity=0.379  Sum_probs=67.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+++.|...+.    ..        ..+..+||+||+|||||++++.+++.+++                 
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~----~g--------RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~   81 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALD----GG--------RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACRE   81 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHh----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHH
Confidence            58999999877776644432    11        12455899999999999999999998864                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                             .++.++..+-.+..++++++...      ....|+||||+|.++.   +++++
T Consensus        82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLK  141 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLK  141 (830)
T ss_pred             HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHH
Confidence                   35555555444455666666653      2567999999999954   45655

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

Probab=99.37  E-value=8.9e-12  Score=114.72  Aligned_cols=164  Identities=15%  Similarity=0.290  Sum_probs=104.0

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC---CCce-eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA---WKHS-YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENME   78 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~g-~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   78 (204)
                      +.|+|++..++.+.+.+...        ..|+.   .+.| ++|+||||||||++|+++|+.++.+++.++++.+.....
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~--------~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRS--------RAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHT  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHH--------hcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhccc
Confidence            35677776666665554422        12332   1333 899999999999999999999999999999987643222


Q ss_pred             -------------------HHHHHHhcCCCeEEEEecCCccchh------------------------------------
Q 041769           79 -------------------LRNMLIATKNKSILVVGDIDYLTLH------------------------------------  103 (204)
Q Consensus        79 -------------------~~~~~~~~~~~~il~iDeid~~~~~------------------------------------  103 (204)
                                         +.+.+. ..+.+|++|||+|.+..+                                    
T Consensus       526 ~~~lig~~~gyvg~~~~~~l~~~~~-~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g  604 (731)
T TIGR02639       526 VSRLIGAPPGYVGFEQGGLLTEAVR-KHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAG  604 (731)
T ss_pred             HHHHhcCCCCCcccchhhHHHHHHH-hCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcc
Confidence                               222222 246789999999998110                                    


Q ss_pred             -------------------------hhhhc---cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCC-
Q 041769          104 -------------------------ILLRS---SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVT-  154 (204)
Q Consensus       104 -------------------------a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~-  154 (204)
                                               ..++|   +|+|..+.|...+.++...|+.+.+.        ++...+...++. 
T Consensus       605 ~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~--------~l~~~l~~~~~~l  676 (731)
T TIGR02639       605 ASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVD--------ELSKQLNEKNIKL  676 (731)
T ss_pred             hhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHH--------HHHHHHHhCCCeE
Confidence                                     01222   58888888888888888888776552        233333332221 


Q ss_pred             --HHHHHHHHhc-CCCHHHHHHhHHHHHHhhh
Q 041769          155 --LADVVEQLMR-NKVPEIALRGLTDVFKIKQ  183 (204)
Q Consensus       155 --~~~i~~~~~~-~~~~~~~~~~~~~~~~~~~  183 (204)
                        ..++..++.. ..++....|.+.++++..-
T Consensus       677 ~i~~~a~~~La~~~~~~~~GaR~l~r~i~~~~  708 (731)
T TIGR02639       677 ELTDDAKKYLAEKGYDEEFGARPLARVIQEEI  708 (731)
T ss_pred             EeCHHHHHHHHHhCCCcccCchHHHHHHHHHh
Confidence              3445555544 3466666777777766543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.37  E-value=1.2e-11  Score=110.31  Aligned_cols=95  Identities=21%  Similarity=0.412  Sum_probs=68.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+++.+.+.+.    ...        .+..+||+||+|+|||++++.+++.+++                 
T Consensus        14 tFddVIGQe~vv~~L~~al~----~gR--------LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C   81 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALE----QQR--------LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQC   81 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHH----hCC--------CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCccc
Confidence            58999999877776654443    222        2455899999999999999999999975                 


Q ss_pred             ------------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 ------------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 ------------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                                  +++.++..+-.+..++++++...      .+..|+||||+|.++.   +++++
T Consensus        82 ~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLK  146 (700)
T PRK12323         82 RACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLK  146 (700)
T ss_pred             HHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHH
Confidence                        34455554434456666666553      2567999999999944   46666

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.37  E-value=2.2e-11  Score=106.56  Aligned_cols=95  Identities=17%  Similarity=0.338  Sum_probs=69.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC------------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN------------------   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~------------------   62 (204)
                      +|++++|++.+.+.+.+.+.    ..        ..+.++||+||+|+||||+|+.+|+.++                  
T Consensus        11 ~f~dliGQe~vv~~L~~a~~----~~--------ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~   78 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFT----LN--------KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCIS   78 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHH
Confidence            58999999877665533322    11        2255799999999999999999998652                  


Q ss_pred             ------CceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           63 ------FDVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        63 ------~~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                            .+++.+++++..+..++++++...      ....+++|||+|.++.   +++++
T Consensus        79 i~~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK  138 (491)
T PRK14964         79 IKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLK  138 (491)
T ss_pred             HhccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHH
Confidence                  356777877666667777776654      2567999999999944   35554

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.35  E-value=1.8e-11  Score=109.81  Aligned_cols=95  Identities=19%  Similarity=0.406  Sum_probs=66.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+...+.+.+.    ...        .+..+||+||+|+|||++|+++|+.+++                 
T Consensus        14 ~f~dviGQe~vv~~L~~~l~----~~r--------l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C   81 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALT----QQR--------LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVC   81 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cCC--------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCcc
Confidence            58999999877666544333    211        2455899999999999999999999864                 


Q ss_pred             ------------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccchh---hhhh
Q 041769           64 ------------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTLH---ILLR  107 (204)
Q Consensus        64 ------------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~~---a~~r  107 (204)
                                  .++.++..+-.+..++++++...      ....|++|||+|.++..   ++++
T Consensus        82 ~~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLK  146 (618)
T PRK14951         82 QACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLK  146 (618)
T ss_pred             HHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHH
Confidence                        24445544434445666666553      24679999999999543   5555

>PRK08727 hypothetical protein; Validated

Probab=99.35  E-value=3.2e-11  Score=96.64  Aligned_cols=61  Identities=26%  Similarity=0.374  Sum_probs=47.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..++|+||+|||||+++++++.++   +..+.++++....  ..+...+.......+|+|||++.+
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~--~~~~~~~~~l~~~dlLiIDDi~~l  105 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAA--GRLRDALEALEGRSLVALDGLESI  105 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhh--hhHHHHHHHHhcCCEEEEeCcccc
Confidence            459999999999999999997775   6677777765433  234456666677789999999987

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.34  E-value=9.9e-11  Score=103.09  Aligned_cols=90  Identities=14%  Similarity=0.330  Sum_probs=63.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+...+.    ..        ..+.+++|+||||||||++|+++|+.+++                 
T Consensus        19 ~f~dliGq~~vv~~L~~ai~----~~--------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~   86 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTIL----ND--------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCT   86 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCCh
Confidence            57899999776665533332    11        22456999999999999999999999854                 


Q ss_pred             -----------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -----------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -----------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                                 .++.++..+-.+..+++.++...      ....+++|||++.++.
T Consensus        87 ~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~  142 (507)
T PRK06645         87 NCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK  142 (507)
T ss_pred             HHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCH
Confidence                       33444444434456677776654      2567999999999844

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

Probab=99.34  E-value=2e-11  Score=112.66  Aligned_cols=162  Identities=19%  Similarity=0.208  Sum_probs=105.6

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHH----
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMEL----   79 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~----   79 (204)
                      +++|.+++|+++.+.+......       +...+..++|+||||+|||++++.+|+.++.+++.+++++......+    
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccch
Confidence            4788888888887776644321       11123459999999999999999999999999999988775433222    


Q ss_pred             -----------HHHHHhcC-CCeEEEEecCCccch-------h-------------------------------------
Q 041769           80 -----------RNMLIATK-NKSILVVGDIDYLTL-------H-------------------------------------  103 (204)
Q Consensus        80 -----------~~~~~~~~-~~~il~iDeid~~~~-------~-------------------------------------  103 (204)
                                 .+.+.... .+.+++|||+|.++.       +                                     
T Consensus       396 ~~~~g~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~  475 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM  475 (784)
T ss_pred             hccCCCCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC
Confidence                       22233332 456999999999811       1                                     


Q ss_pred             ----hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHH-hh--hCCCCHHHHHHHHhcCCCHHHHHHhHH
Q 041769          104 ----ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDEL-IE--KANVTLADVVEQLMRNKVPEIALRGLT  176 (204)
Q Consensus       104 ----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~-~~--~~~l~~~~i~~~~~~~~~~~~~~~~~~  176 (204)
                          +++  +|+. .+.+..++.++...|+.+|+..      ..+... +.  ...++ .++..++++.+.++...|.+.
T Consensus       476 ~i~~aLl--~R~~-ii~~~~~t~eek~~Ia~~~L~~------k~~~~~~l~~~~l~i~-~~ai~~ii~~yt~e~GaR~Le  545 (784)
T PRK10787        476 NIPAPLL--DRME-VIRLSGYTEDEKLNIAKRHLLP------KQIERNALKKGELTVD-DSAIIGIIRYYTREAGVRSLE  545 (784)
T ss_pred             CCCHHHh--ccee-eeecCCCCHHHHHHHHHHhhhH------HHHHHhCCCCCeEEEC-HHHHHHHHHhCCcccCCcHHH
Confidence                333  3885 4889999999999998887621      111111 11  12233 344445555666777777777


Q ss_pred             HHHHhh
Q 041769          177 DVFKIK  182 (204)
Q Consensus       177 ~~~~~~  182 (204)
                      +.+++.
T Consensus       546 R~I~~i  551 (784)
T PRK10787        546 REISKL  551 (784)
T ss_pred             HHHHHH
Confidence            777653

>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=99.34  E-value=1.5e-11  Score=97.70  Aligned_cols=92  Identities=24%  Similarity=0.421  Sum_probs=57.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~   75 (204)
                      ||++++..+.-+. +...+..+...+.       .....+++|||+|+|||+|++++++++     +..+++++...+..
T Consensus         6 tFdnfv~g~~N~~-a~~~~~~ia~~~~-------~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~   77 (219)
T PF00308_consen    6 TFDNFVVGESNEL-AYAAAKAIAENPG-------ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIR   77 (219)
T ss_dssp             SCCCS--TTTTHH-HHHHHHHHHHSTT-------TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHH
T ss_pred             ccccCCcCCcHHH-HHHHHHHHHhcCC-------CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHH
Confidence            6888875443322 2233333332211       112348999999999999999999875     56788887655421


Q ss_pred             -------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 -------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 -------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                             ...+.+.........+|+|||++.+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l  109 (219)
T PF00308_consen   78 EFADALRDGEIEEFKDRLRSADLLIIDDIQFL  109 (219)
T ss_dssp             HHHHHHHTTSHHHHHHHHCTSSEEEEETGGGG
T ss_pred             HHHHHHHcccchhhhhhhhcCCEEEEecchhh
Confidence                   1223344455667889999999998

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.33  E-value=3.9e-11  Score=108.03  Aligned_cols=90  Identities=18%  Similarity=0.405  Sum_probs=64.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++|+|++.++..+...+..    +        ..+.++||+||+|+|||++|+++|+.+++.                
T Consensus        14 tFddIIGQe~vv~~L~~ai~~----~--------rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~   81 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDE----G--------RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQ   81 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHc----C--------CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHH
Confidence            589999998877766555441    1        225669999999999999999999987532                


Q ss_pred             --------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           65 --------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        65 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                              ++.++.++-.+...+++++...      ....|+||||+|.++.
T Consensus        82 i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~  133 (709)
T PRK08691         82 IDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSK  133 (709)
T ss_pred             HhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCH
Confidence                    3344444434445667766543      3567999999999854

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

Probab=99.33  E-value=1.7e-11  Score=96.42  Aligned_cols=143  Identities=20%  Similarity=0.256  Sum_probs=90.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-C----CceEEeecCCccChHHHHHHHHhc---------CCCeEEEEecCCccchh-
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-N----FDVYDLELTTFKENMELRNMLIAT---------KNKSILVVGDIDYLTLH-  103 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-~----~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~il~iDeid~~~~~-  103 (204)
                      ++++.||||+||||.+.++|+++ |    -.+..+|+|+-++..-++..+...         .+..|+++||+|++|-. 
T Consensus        50 ~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gA  129 (333)
T KOG0991|consen   50 NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGA  129 (333)
T ss_pred             ceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHH
Confidence            49999999999999999999998 4    356789999887776666554443         14579999999999654 


Q ss_pred             --hhhhc-------cccceeEecC--CCCH-HHHHHHHHHhhCCCCCCcHHHHHHHhhh--CCCCHHHHHHHHh-cCCCH
Q 041769          104 --ILLRS-------SCMDMHIHMS--YCTP-FRFKMLASNYFGITEHPLLTEIDELIEK--ANVTLADVVEQLM-RNKVP  168 (204)
Q Consensus       104 --a~~r~-------~R~~~~i~~~--~p~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~i~~~~~-~~~~~  168 (204)
                        |+.|.       -||-......  ...+ ..|..++ +|....+..+..++..+++.  ..++++.+..++. ...+.
T Consensus       130 QQAlRRtMEiyS~ttRFalaCN~s~KIiEPIQSRCAiL-Rysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDM  208 (333)
T KOG0991|consen  130 QQALRRTMEIYSNTTRFALACNQSEKIIEPIQSRCAIL-RYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDM  208 (333)
T ss_pred             HHHHHHHHHHHcccchhhhhhcchhhhhhhHHhhhHhh-hhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchH
Confidence              55552       2443222110  0111 1133333 35555555555566666554  3455666655553 34678


Q ss_pred             HHHHHhHHHHHHhh
Q 041769          169 EIALRGLTDVFKIK  182 (204)
Q Consensus       169 ~~~~~~~~~~~~~~  182 (204)
                      +.+++++.+.++.-
T Consensus       209 RQalNnLQst~~g~  222 (333)
T KOG0991|consen  209 RQALNNLQSTVNGF  222 (333)
T ss_pred             HHHHHHHHHHhccc
Confidence            88888887766543

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.32  E-value=1.2e-10  Score=99.12  Aligned_cols=90  Identities=18%  Similarity=0.360  Sum_probs=60.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++...+.+...+.    ..        ..+..++|+||||+|||++|+++|+.+..                 
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~----~~--------~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~   81 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLS----LG--------RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKE   81 (363)
T ss_pred             chhhccChHHHHHHHHHHHH----cC--------CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHH
Confidence            58999999877766543332    11        12455899999999999999999999853                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             +++.++.++-.....+++++...      ....+++|||+|.++-
T Consensus        82 ~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~  133 (363)
T PRK14961         82 IEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR  133 (363)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCH
Confidence                   23344443323334555555543      2456999999999953

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

Probab=99.32  E-value=2.8e-11  Score=110.58  Aligned_cols=90  Identities=22%  Similarity=0.323  Sum_probs=58.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++...... ..+...+..         ....+++|||||||||||+|+++++.++.+++.++.... ....++
T Consensus        26 tldd~vGQe~ii~~~-~~L~~~i~~---------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~-~i~dir   94 (725)
T PRK13341         26 TLEEFVGQDHILGEG-RLLRRAIKA---------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLA-GVKDLR   94 (725)
T ss_pred             cHHHhcCcHHHhhhh-HHHHHHHhc---------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhh-hhHHHH
Confidence            467778776554321 122222221         112459999999999999999999999988888876532 222233


Q ss_pred             HHHHh-------cCCCeEEEEecCCccc
Q 041769           81 NMLIA-------TKNKSILVVGDIDYLT  101 (204)
Q Consensus        81 ~~~~~-------~~~~~il~iDeid~~~  101 (204)
                      +.+..       .....+|||||+|.++
T Consensus        95 ~~i~~a~~~l~~~~~~~IL~IDEIh~Ln  122 (725)
T PRK13341         95 AEVDRAKERLERHGKRTILFIDEVHRFN  122 (725)
T ss_pred             HHHHHHHHHhhhcCCceEEEEeChhhCC
Confidence            32222       2356799999999983

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.32  E-value=6.5e-11  Score=105.11  Aligned_cols=95  Identities=19%  Similarity=0.438  Sum_probs=65.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+...+.    ...        .+..++|+||||+|||++|+++|+.+++                 
T Consensus        14 ~f~divGq~~v~~~L~~~i~----~~~--------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~   81 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALE----QQR--------LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLE   81 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHH----cCC--------CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHH
Confidence            58899999877776644443    211        2455899999999999999999999854                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                             .++.++.+.-.....+++++...      ....|++|||+|.++.   +++++
T Consensus        82 i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK  141 (527)
T PRK14969         82 IDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLK  141 (527)
T ss_pred             HhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHH
Confidence                   23445444333445566665543      2457999999999954   35555

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.31  E-value=7.3e-11  Score=105.44  Aligned_cols=91  Identities=22%  Similarity=0.368  Sum_probs=63.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+.+.+...+.    ...        .+..+||+||+|||||++|+++|+.+.+                 
T Consensus        11 ~f~eivGq~~i~~~L~~~i~----~~r--------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~   78 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALD----AGR--------INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVA   78 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHH----cCC--------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHH
Confidence            58999999877776644443    211        2445899999999999999999998753                 


Q ss_pred             ---------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccchh
Q 041769           64 ---------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        64 ---------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~~  103 (204)
                               +++.++.++..+...++++....      ....|++|||+|.++..
T Consensus        79 i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~  133 (584)
T PRK14952         79 LAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTA  133 (584)
T ss_pred             hhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHH
Confidence                     24445554444455555554332      35679999999999443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.31  E-value=5e-11  Score=107.28  Aligned_cols=95  Identities=18%  Similarity=0.383  Sum_probs=65.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+...+.+.+.    ...        .+..+||+||+|+|||++|+.+|+.+++                 
T Consensus        14 ~f~divGQe~vv~~L~~~l~----~~r--------l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~   81 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALD----LGR--------LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCRE   81 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cCC--------CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHH
Confidence            58999999877766644333    111        2455899999999999999999999965                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                             +++.++.++-.....+++++...      ....|++|||+|.++.   +++++
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLK  141 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLK  141 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHH
Confidence                   23445554323345566655443      2567999999999944   35544

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.31  E-value=8.3e-11  Score=94.37  Aligned_cols=61  Identities=20%  Similarity=0.262  Sum_probs=42.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..++||||||+|||||++++++++   |..+.+++......  ...+.+.......+|+|||++.+
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~--~~~~~~~~~~~~dlliiDdi~~~  109 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW--FVPEVLEGMEQLSLVCIDNIECI  109 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh--hhHHHHHHhhhCCEEEEeChhhh
Confidence            469999999999999999999876   44566666544221  11223333334468999999987

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.30  E-value=8.6e-11  Score=103.65  Aligned_cols=89  Identities=18%  Similarity=0.436  Sum_probs=61.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.++..+...+..    .        ..+..+||||||||||||+|+++|+.+.+                 
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~----~--------~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i   79 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQ----G--------RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAV   79 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHc----C--------CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHH
Confidence            589999998776666554442    1        12344799999999999999999999853                 


Q ss_pred             ------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccc
Q 041769           64 ------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLT  101 (204)
Q Consensus        64 ------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~  101 (204)
                            .++.++.++......++++....      ....+++|||+|.++
T Consensus        80 ~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls  129 (504)
T PRK14963         80 RRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMS  129 (504)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccC
Confidence                  25556655333344455543332      356799999999984

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.29  E-value=6.6e-11  Score=109.43  Aligned_cols=91  Identities=20%  Similarity=0.361  Sum_probs=63.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.+++.|...+.    ..        ..+..+||+||+|+|||++++.||+.+.+                 
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~----~~--------ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~   80 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALD----SG--------RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVA   80 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----hC--------CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHH
Confidence            58999999877776654443    11        12445899999999999999999999953                 


Q ss_pred             ---------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccchh
Q 041769           64 ---------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        64 ---------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~~  103 (204)
                               .++.++..+.....+++++....      ....|+||||+|.++..
T Consensus        81 ~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~  135 (824)
T PRK07764         81 LAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQ  135 (824)
T ss_pred             HHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHH
Confidence                     23445544434445555543322      36789999999999544

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.29  E-value=1.2e-10  Score=104.15  Aligned_cols=95  Identities=20%  Similarity=0.445  Sum_probs=67.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC------------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN------------------   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~------------------   62 (204)
                      +|++++|++.+.+.+.+.+..    .        ..+..+||+||+|+|||++|+.+|+.+.                  
T Consensus        14 ~f~~viGq~~v~~~L~~~i~~----~--------~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~   81 (559)
T PRK05563         14 TFEDVVGQEHITKTLKNAIKQ----G--------KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKA   81 (559)
T ss_pred             cHHhccCcHHHHHHHHHHHHc----C--------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHH
Confidence            589999998777666554442    1        1245689999999999999999999984                  


Q ss_pred             ------CceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           63 ------FDVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        63 ------~~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                            .+++.++.++-.+...++++....      ....|++|||+|.++.   +++++
T Consensus        82 i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLK  141 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLK  141 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHH
Confidence                  345566665434445566665553      2567999999999944   35554

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.28  E-value=2.9e-11  Score=107.13  Aligned_cols=90  Identities=19%  Similarity=0.366  Sum_probs=61.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+...+.    ..        ..+..++|+||+|+|||++|+.+|+.+.+                 
T Consensus        14 ~f~diiGq~~~v~~L~~~i~----~~--------rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~   81 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALE----TQ--------KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVA   81 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHH
Confidence            58899999877766544333    11        12445899999999999999999998853                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .++.++...-.+..++++++...      ....|++|||+|.++.
T Consensus        82 i~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~  133 (546)
T PRK14957         82 INNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSK  133 (546)
T ss_pred             HhcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccH
Confidence                   34445543333334455554433      2567999999999954

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.28  E-value=2.5e-10  Score=105.05  Aligned_cols=95  Identities=20%  Similarity=0.410  Sum_probs=63.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++|+|++.++..+.+.+.    ...        .+..+||+||||||||++|+++|+.+++.                
T Consensus        14 tFddIIGQe~Iv~~LknaI~----~~r--------l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~   81 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALT----QQR--------LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVE   81 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----hCC--------CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHH
Confidence            58999999877766544332    211        24457999999999999999999999653                


Q ss_pred             --------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           65 --------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        65 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                              ++.++.++......+++++...      ....|+||||+|.++.   +++++
T Consensus        82 i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLK  141 (944)
T PRK14949         82 IAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLK  141 (944)
T ss_pred             HhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHH
Confidence                    1223333222334455554433      2467999999999954   45555

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.27  E-value=7.7e-11  Score=109.77  Aligned_cols=86  Identities=20%  Similarity=0.349  Sum_probs=60.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      |+.++|.++...++.+.+.             ...+.+++|+||||||||++++.+|..+          +.+++.++++
T Consensus       178 ~~~~igr~~ei~~~~~~L~-------------r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~  244 (821)
T CHL00095        178 LDPVIGREKEIERVIQILG-------------RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIG  244 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHc-------------ccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHH
Confidence            4556666655555544332             1234579999999999999999999987          4788999887


Q ss_pred             CccC--------hHHHHHHHHhc--CCCeEEEEecCCcc
Q 041769           72 TFKE--------NMELRNMLIAT--KNKSILVVGDIDYL  100 (204)
Q Consensus        72 ~~~~--------~~~~~~~~~~~--~~~~il~iDeid~~  100 (204)
                      .+..        ...+..++..+  ..+.||||||++.+
T Consensus       245 ~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l  283 (821)
T CHL00095        245 LLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTL  283 (821)
T ss_pred             HHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHH
Confidence            6531        13456666654  35789999999876

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.27  E-value=7.7e-11  Score=93.50  Aligned_cols=63  Identities=19%  Similarity=0.348  Sum_probs=47.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCccc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLT  101 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~~  101 (204)
                      +.+++|+||+|||||++|+++++.+   +.++++++++.+...  ....+.......+|+|||++.+.
T Consensus        38 ~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~~~lLvIDdi~~l~  103 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQA--DPEVLEGLEQADLVCLDDVEAIA  103 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHh--HHHHHhhcccCCEEEEeChhhhc
Confidence            4569999999999999999999887   467778877665422  12344444556799999999873

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.27  E-value=1.1e-10  Score=108.79  Aligned_cols=93  Identities=15%  Similarity=0.249  Sum_probs=69.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccC----h----HHHHHHHHhc---CCCeEEEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKE----N----MELRNMLIAT---KNKSILVVG   95 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~----~----~~~~~~~~~~---~~~~il~iD   95 (204)
                      ..+++|+||||||||++++.+|+.+          +..++.++++.+..    .    ..++.++...   ..+.|||||
T Consensus       208 ~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfID  287 (852)
T TIGR03345       208 QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFID  287 (852)
T ss_pred             cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence            3568999999999999999999986          35677787776532    1    3566666655   357899999


Q ss_pred             cCCccc-------------------------------h---------h-hhhhccccceeEecCCCCHHHHHHHHHHh
Q 041769           96 DIDYLT-------------------------------L---------H-ILLRSSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus        96 eid~~~-------------------------------~---------~-a~~r~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      |++.+.                               .         + ++.|  ||. .|.++.|+..+...|++.+
T Consensus       288 Eih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       288 EAHTLIGAGGQAGQGDAANLLKPALARGELRTIAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             ChHHhccCCCccccccHHHHhhHHhhCCCeEEEEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHH
Confidence            999981                               0         0 5666  896 6999999999887775433

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=1.7e-10  Score=103.45  Aligned_cols=95  Identities=19%  Similarity=0.412  Sum_probs=65.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.++..+...+.    ..        ..+..+|||||+|+|||++++++|+.+.+                 
T Consensus        14 ~f~~iiGq~~v~~~L~~~i~----~~--------~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~   81 (576)
T PRK14965         14 TFSDLTGQEHVSRTLQNAID----TG--------RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVE   81 (576)
T ss_pred             CHHHccCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHH
Confidence            58999999877776655443    11        12456899999999999999999999853                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                             +++.++..+..+..+++++....      ....|++|||+|.++.   +++++
T Consensus        82 i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk  141 (576)
T PRK14965         82 ITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLK  141 (576)
T ss_pred             HhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHH
Confidence                   24445544433445565555443      2567999999999954   35554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.24  E-value=1.1e-10  Score=100.80  Aligned_cols=98  Identities=19%  Similarity=0.306  Sum_probs=66.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh-------HHHHHHHHhcCCCeEEEEecCCccc----
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN-------MELRNMLIATKNKSILVVGDIDYLT----  101 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~il~iDeid~~~----  101 (204)
                      .+++||||||+|||+|++++++++     +..+++++...+...       ..............+|+|||++.+.    
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~  216 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKER  216 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCHH
Confidence            459999999999999999999987     567888876553211       0111222223456799999999761    


Q ss_pred             --------hh------------------------hhhhccccc--eeEecCCCCHHHHHHHHHHhhCCC
Q 041769          102 --------LH------------------------ILLRSSCMD--MHIHMSYCTPFRFKMLASNYFGIT  136 (204)
Q Consensus       102 --------~~------------------------a~~r~~R~~--~~i~~~~p~~~~~~~i~~~~~~~~  136 (204)
                              ++                        .-++ +|+.  ..+.+..|+.+++..++.......
T Consensus       217 ~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~-SRl~~g~~v~i~~pd~~~r~~il~~~~~~~  284 (405)
T TIGR00362       217 TQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLR-SRFEWGLVVDIEPPDLETRLAILQKKAEEE  284 (405)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhh-hhccCCeEEEeCCCCHHHHHHHHHHHHHHc
Confidence                    00                        1111 4776  468889999999888877665543

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).

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.24  E-value=3.1e-10  Score=101.09  Aligned_cols=90  Identities=19%  Similarity=0.417  Sum_probs=61.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.....+.+.+.    ..        ..+.++||+||+|+|||++|+++|+.+.+                 
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~----~~--------rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~   81 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAIL----NN--------KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCES   81 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            58899999877666544332    11        22456999999999999999999999842                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .++.++.++..+...++.++...      ....+++|||+|.++.
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~  133 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLST  133 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCH
Confidence                   34445544333445566655433      2467999999999854

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.24  E-value=1e-10  Score=109.11  Aligned_cols=116  Identities=16%  Similarity=0.261  Sum_probs=81.4

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      ++.++|.+....++.+.+..             .....++|+||||||||++++++|..+          +.+++.++++
T Consensus       177 l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~  243 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG  243 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehh
Confidence            56677776544444333221             113458999999999999999999998          6788888887


Q ss_pred             CccCh--------HHHHHHHHhc---CCCeEEEEecCCccc-------------------------------hh------
Q 041769           72 TFKEN--------MELRNMLIAT---KNKSILVVGDIDYLT-------------------------------LH------  103 (204)
Q Consensus        72 ~~~~~--------~~~~~~~~~~---~~~~il~iDeid~~~-------------------------------~~------  103 (204)
                      .+...        ..+..+|...   ..+.||||||++.+.                               .+      
T Consensus       244 ~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g~l~~IgaTt~~e~r~~~  323 (857)
T PRK10865        244 ALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYI  323 (857)
T ss_pred             hhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcCCCeEEEcCCCHHHHHHh
Confidence            75321        2456666553   467899999999881                               00      


Q ss_pred             ----hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 ----ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 ----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                          ++.|  ||+. |.++.|+.++...+++.+.
T Consensus       324 ~~d~al~r--Rf~~-i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        324 EKDAALER--RFQK-VFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             hhcHHHHh--hCCE-EEeCCCCHHHHHHHHHHHh
Confidence                5555  9974 8899999988777665443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.23  E-value=4.6e-10  Score=94.17  Aligned_cols=59  Identities=14%  Similarity=0.335  Sum_probs=42.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTT   72 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~   72 (204)
                      +|++++|++.++..+...+.    .         ....+++|+||||||||++|+++++.+.     .+++.+++++
T Consensus        13 ~~~~~~g~~~~~~~L~~~~~----~---------~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~   76 (337)
T PRK12402         13 LLEDILGQDEVVERLSRAVD----S---------PNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVAD   76 (337)
T ss_pred             cHHHhcCCHHHHHHHHHHHh----C---------CCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhh
Confidence            47888888776666544332    1         1123599999999999999999999883     3456677654

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.23  E-value=2.9e-10  Score=97.87  Aligned_cols=90  Identities=13%  Similarity=0.327  Sum_probs=60.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++++|++.++..+...+.    ..        ..+.+++|+||||+|||++|+++|+.+.+.                
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~----~~--------~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c   81 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLR----MG--------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPC   81 (397)
T ss_pred             cHhhccChHHHHHHHHHHHH----hC--------CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCC
Confidence            58899999877766544333    21        124569999999999999999999998552                


Q ss_pred             ----------------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           65 ----------------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        65 ----------------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                                      ++.++.........++++....      ....+++|||+|.++-
T Consensus        82 ~~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~  141 (397)
T PRK14955         82 GECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSI  141 (397)
T ss_pred             CCCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCH
Confidence                            2333332222334555544443      2567999999999954

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

Probab=99.22  E-value=1.4e-10  Score=106.46  Aligned_cols=93  Identities=18%  Similarity=0.345  Sum_probs=66.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccCh--------HHHHHHHHhc--CCCeEEEEec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKEN--------MELRNMLIAT--KNKSILVVGD   96 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~~--------~~~~~~~~~~--~~~~il~iDe   96 (204)
                      +.+++|+||||||||+++++++...          +..++.++++.+...        ..+..++...  ..+++|||||
T Consensus       207 ~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDE  286 (758)
T PRK11034        207 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDE  286 (758)
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHHHHHHHHHHHHHhcCCCEEEecc
Confidence            4568999999999999999999875          556666665544311        2234444433  3578999999


Q ss_pred             CCcc--------------------------------ch----------hhhhhccccceeEecCCCCHHHHHHHHHHh
Q 041769           97 IDYL--------------------------------TL----------HILLRSSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus        97 id~~--------------------------------~~----------~a~~r~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      ++.+                                |.          .++.|  ||+ .|.++.|+.++...|+..+
T Consensus       287 Ih~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgATt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        287 IHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHH
Confidence            9976                                00          05555  996 5999999999887776643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.22  E-value=1.1e-10  Score=109.16  Aligned_cols=93  Identities=19%  Similarity=0.318  Sum_probs=68.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccCh--------HHHHHHHHhc---CCCeEEEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKEN--------MELRNMLIAT---KNKSILVVG   95 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~~--------~~~~~~~~~~---~~~~il~iD   95 (204)
                      ...++|+||||||||++++++|..+          +.+++.++++.+...        ..+..++...   ..+.|||||
T Consensus       194 ~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfID  273 (852)
T TIGR03346       194 KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFID  273 (852)
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEec
Confidence            3558899999999999999999986          678888887765311        2445555544   357899999


Q ss_pred             cCCccc-------------------------------hh----------hhhhccccceeEecCCCCHHHHHHHHHHh
Q 041769           96 DIDYLT-------------------------------LH----------ILLRSSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus        96 eid~~~-------------------------------~~----------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      |++.+.                               ..          ++.|  ||.. |.++.|+.++...+++.+
T Consensus       274 Eih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaTt~~e~r~~~~~d~al~r--Rf~~-i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       274 ELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRKYIEKDAALER--RFQP-VFVDEPTVEDTISILRGL  348 (852)
T ss_pred             cHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeCcHHHHHHHhhcCHHHHh--cCCE-EEeCCCCHHHHHHHHHHH
Confidence            999771                               00          4455  8865 789999988877776644

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.21  E-value=8.8e-10  Score=93.21  Aligned_cols=88  Identities=22%  Similarity=0.451  Sum_probs=60.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.++..+.+.+.    ..        ..+..++||||||+|||++++++++.+..                 
T Consensus        12 ~~~~iig~~~~~~~l~~~~~----~~--------~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~   79 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIK----NG--------RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKE   79 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHH
Confidence            58899999888777655443    11        12456899999999999999999998742                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCcc
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~  100 (204)
                             +++.++.........+++++...      ....+++|||+|.+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l  129 (355)
T TIGR02397        80 INSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHML  129 (355)
T ss_pred             HhcCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhc
Confidence                   34445544333334455555543      24569999999988

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.21  E-value=3.9e-10  Score=89.80  Aligned_cols=58  Identities=19%  Similarity=0.335  Sum_probs=44.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..+++|+||+|||||++++++++.+   +.++.++++.....      .+.......+|+|||++.+
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~------~~~~~~~~~~liiDdi~~l  102 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLL------AFDFDPEAELYAVDDVERL  102 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHH------HHhhcccCCEEEEeChhhc
Confidence            4679999999999999999999976   66777777755321      1233345679999999987

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.21  E-value=5.4e-10  Score=98.80  Aligned_cols=90  Identities=20%  Similarity=0.388  Sum_probs=63.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC------------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN------------------   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~------------------   62 (204)
                      +|++++|++.+++.+...+.    ..        ..+..+|||||+|+|||++|+++++.+.                  
T Consensus        12 ~fdeiiGqe~v~~~L~~~I~----~g--------rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~   79 (535)
T PRK08451         12 HFDELIGQESVSKTLSLALD----NN--------RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQS   79 (535)
T ss_pred             CHHHccCcHHHHHHHHHHHH----cC--------CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            58999999888776655443    11        1245589999999999999999999873                  


Q ss_pred             ------CceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           63 ------FDVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        63 ------~~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                            ..++.++.++-.+...+++.+...      ....|++|||+|.++.
T Consensus        80 ~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~  131 (535)
T PRK08451         80 ALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTK  131 (535)
T ss_pred             HhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH
Confidence                  134555544333445666666542      2467999999999954

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

Probab=99.20  E-value=6.9e-11  Score=101.80  Aligned_cols=98  Identities=21%  Similarity=0.276  Sum_probs=66.2

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHH--hCCC-CCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRN--VGKA-WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      .|+|++..++.+...+...+..-.....  -... ...+++|+||||||||++|+++|..++.+++.++++.+...    
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG  151 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG  151 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCccc
Confidence            3788888888876665544332211000  0111 23569999999999999999999999999999998765421    


Q ss_pred             ----HHHHHHHHh------cCCCeEEEEecCCccc
Q 041769           77 ----MELRNMLIA------TKNKSILVVGDIDYLT  101 (204)
Q Consensus        77 ----~~~~~~~~~------~~~~~il~iDeid~~~  101 (204)
                          ..+...+..      ...+++|||||+|.++
T Consensus       152 ~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~  186 (412)
T PRK05342        152 EDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIA  186 (412)
T ss_pred             chHHHHHHHHHHhccccHHHcCCcEEEEechhhhc
Confidence                112222222      1367999999999994

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.20  E-value=3.1e-10  Score=105.74  Aligned_cols=90  Identities=18%  Similarity=0.380  Sum_probs=60.9

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCC---CCCce-eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGK---AWKHS-YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~~~~g-~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~   75 (204)
                      +.|+|++.....+...+....        .|+   ..|.+ ++|+||+|||||++|++||+.+   +.+++.++++.+..
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            457788777777766554321        122   11333 8899999999999999999988   46788899887643


Q ss_pred             hHHHHHHH----------------Hh--cCCCeEEEEecCCcc
Q 041769           76 NMELRNML----------------IA--TKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ~~~~~~~~----------------~~--~~~~~il~iDeid~~  100 (204)
                      ...+...+                ..  ..+.+|++|||+|.+
T Consensus       581 ~~~~~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        581 KHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             cccHHHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhC
Confidence            22222111                11  134689999999999

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.20  E-value=2.1e-10  Score=100.26  Aligned_cols=96  Identities=21%  Similarity=0.337  Sum_probs=63.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh-------HHHHHHHHhcCCCeEEEEecCCccch---
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN-------MELRNMLIATKNKSILVVGDIDYLTL---  102 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~il~iDeid~~~~---  102 (204)
                      .+++||||||+|||+|++++++++     +..+++++...+...       ..............+|+|||++.+..   
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~  228 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKER  228 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCHH
Confidence            459999999999999999999998     456778777654211       11122223334677999999987611   


Q ss_pred             ---------h------------------------hhhhccccc--eeEecCCCCHHHHHHHHHHhhC
Q 041769          103 ---------H------------------------ILLRSSCMD--MHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       103 ---------~------------------------a~~r~~R~~--~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                               +                        .-++ +||.  ..+.+..|+.+++..++.....
T Consensus       229 ~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~-SRl~~gl~v~i~~pd~~~r~~il~~~~~  294 (450)
T PRK00149        229 TQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLR-SRFEWGLTVDIEPPDLETRIAILKKKAE  294 (450)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHH-hHhcCCeeEEecCCCHHHHHHHHHHHHH
Confidence                     0                        1112 3665  4677777888777777665543

>PRK05642 DNA replication initiation factor; Validated

Probab=99.20  E-value=3.4e-10  Score=90.81  Aligned_cols=61  Identities=20%  Similarity=0.322  Sum_probs=45.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..++||||+|+|||+|++++++++   +..+++++..++...  ....+.......+|+|||++.+
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~--~~~~~~~~~~~d~LiiDDi~~~  109 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR--GPELLDNLEQYELVCLDDLDVI  109 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh--hHHHHHhhhhCCEEEEechhhh
Confidence            569999999999999999999765   677888887665422  1233334445568999999976

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.19  E-value=8.9e-10  Score=96.92  Aligned_cols=90  Identities=18%  Similarity=0.370  Sum_probs=59.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+.+.+.    ..        ..+..+|||||+|+|||++|+.+|+.+++                 
T Consensus        14 ~f~diiGq~~i~~~L~~~i~----~~--------~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~   81 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVK----LQ--------RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVE   81 (486)
T ss_pred             cHHHccChHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHH
Confidence            47889999777666544443    11        12445889999999999999999998853                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .++.++.+.-.+...++.+....      ....+++|||+|.++.
T Consensus        82 i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~  133 (486)
T PRK14953         82 IDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTK  133 (486)
T ss_pred             HhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCH
Confidence                   23334443333334444443332      2567999999999944

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.19  E-value=9.9e-10  Score=94.22  Aligned_cols=97  Identities=21%  Similarity=0.284  Sum_probs=66.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      .|++|+|++.+++.+...+.....   .+...+...+.++||+||||+|||++|+++|+.+.+.                
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~---~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~   79 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARA---DVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccc---cccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            489999999888888777664322   1222333446779999999999999999999987442                


Q ss_pred             -------eEEeecCCc-cChHHHHHHHHhc------CCCeEEEEecCCcc
Q 041769           65 -------VYDLELTTF-KENMELRNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        65 -------~~~~~~~~~-~~~~~~~~~~~~~------~~~~il~iDeid~~  100 (204)
                             +..+..... .....+++++...      ....|++|||+|.+
T Consensus        80 ~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m  129 (394)
T PRK07940         80 LAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRL  129 (394)
T ss_pred             hcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhc
Confidence                   233333221 2335566666544      24569999999999

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.19  E-value=4.4e-10  Score=91.59  Aligned_cols=36  Identities=25%  Similarity=0.296  Sum_probs=32.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      +..++|+||||||||++|+++|+.+|.+++.+++..
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~   56 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDA   56 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCc
Confidence            345999999999999999999999999999987754

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).

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=7.5e-10  Score=99.13  Aligned_cols=90  Identities=17%  Similarity=0.317  Sum_probs=60.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++|+|++.++..+...+.    ...        ....+||+||+|+|||++|+.+|+.+.+.                
T Consensus        14 sf~dIiGQe~v~~~L~~ai~----~~r--------i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~   81 (624)
T PRK14959         14 TFAEVAGQETVKAILSRAAQ----ENR--------VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRK   81 (624)
T ss_pred             CHHHhcCCHHHHHHHHHHHH----cCC--------CCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHH
Confidence            58899999877655544333    211        13569999999999999999999999642                


Q ss_pred             --------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           65 --------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        65 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                              ++.++...-.....++.+....      ....|++|||+|.++.
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~  133 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTR  133 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCH
Confidence                    4555543323333444432221      2567999999999954

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

Probab=99.18  E-value=2.8e-11  Score=100.72  Aligned_cols=62  Identities=29%  Similarity=0.521  Sum_probs=48.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc-eEEeecCCcc-ChHHHHHHHHhc-------CCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD-VYDLELTTFK-ENMELRNMLIAT-------KNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~-------~~~~il~iDeid~~  100 (204)
                      .++||||||||||++|+.|+.....+ +..+..+... ...+++.+|+..       .+..||||||++.+
T Consensus       164 SmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRF  234 (554)
T KOG2028|consen  164 SMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRF  234 (554)
T ss_pred             ceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhh
Confidence            49999999999999999999988654 3444444433 335677777776       36899999999999

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.17  E-value=2.2e-10  Score=106.77  Aligned_cols=91  Identities=15%  Similarity=0.329  Sum_probs=62.6

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCce-eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKHS-YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~g-~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      +.|+|++.....+.+.+.....      .+.- ..|.| ++|+||||||||.+|++||+.+   ...++.++++.+....
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~------gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARA------GLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAH  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhc------CCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhh
Confidence            4677888777777666653321      1111 12444 8999999999999999999999   4578889987763322


Q ss_pred             H-------------------HHHHHHhcCCCeEEEEecCCcc
Q 041769           78 E-------------------LRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~-------------------~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .                   +.+.+.. .+.++|+|||++.+
T Consensus       640 ~~~~l~g~~~gyvg~~~~g~L~~~v~~-~p~svvllDEieka  680 (852)
T TIGR03345       640 TVSRLKGSPPGYVGYGEGGVLTEAVRR-KPYSVVLLDEVEKA  680 (852)
T ss_pred             hhccccCCCCCcccccccchHHHHHHh-CCCcEEEEechhhc
Confidence            1                   2233332 46789999999998

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.16  E-value=1e-09  Score=98.86  Aligned_cols=90  Identities=13%  Similarity=0.331  Sum_probs=60.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++++|++.++..+...+.    ..        ..+.++||+||+|+|||++|+.+|+.+.+.                
T Consensus        14 ~f~eivGQe~i~~~L~~~i~----~~--------ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~C   81 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLR----MD--------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPC   81 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCC
Confidence            58899999877666543322    21        224569999999999999999999999652                


Q ss_pred             ----------------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           65 ----------------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        65 ----------------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                                      +..++.........++++....      ....+++|||+|.++.
T Consensus        82 g~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~  141 (620)
T PRK14954         82 GECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLST  141 (620)
T ss_pred             ccCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCH
Confidence                            2223332222334555554443      3567999999999954

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.16  E-value=6.5e-10  Score=103.97  Aligned_cols=90  Identities=18%  Similarity=0.402  Sum_probs=61.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC---CCc-eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA---WKH-SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~-g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~   75 (204)
                      +.|+|++...+.+...+.....        |+.   .|. .++|+||||||||++|++|++.+   +.+++.++++.+..
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            4577887777777666554321        211   123 48899999999999999999988   56889999887644


Q ss_pred             hHHHHHHH----------------Hh--cCCCeEEEEecCCcc
Q 041769           76 NMELRNML----------------IA--TKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ~~~~~~~~----------------~~--~~~~~il~iDeid~~  100 (204)
                      .......+                ..  ..+.++|+|||++.+
T Consensus       637 ~~~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       637 KHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             cchHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccC
Confidence            32222211                11  135679999999998

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.16  E-value=1.3e-09  Score=92.89  Aligned_cols=89  Identities=18%  Similarity=0.456  Sum_probs=60.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC------------ceEEe
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF------------DVYDL   68 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~------------~~~~~   68 (204)
                      +|++++|++...+.+.+.+.    .+        ..+.+++||||||+|||++++++++.+..            .++.+
T Consensus        15 ~~~~iig~~~~~~~l~~~i~----~~--------~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l   82 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIE----NN--------HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL   82 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe
Confidence            58899999877666544443    21        12457999999999999999999998753            22333


Q ss_pred             ecCCccChHHHHHHHHhc------CCCeEEEEecCCccc
Q 041769           69 ELTTFKENMELRNMLIAT------KNKSILVVGDIDYLT  101 (204)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~  101 (204)
                      +.........+++++..+      ....+++|||+|.++
T Consensus        83 ~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~  121 (367)
T PRK14970         83 DAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLS  121 (367)
T ss_pred             ccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcC
Confidence            333323335566665543      245799999999884

>PRK06620 hypothetical protein; Validated

Probab=99.16  E-value=9.6e-10  Score=87.00  Aligned_cols=53  Identities=21%  Similarity=0.364  Sum_probs=36.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.++||||||+|||||++++++..+..+..  ....  .   ...   .....+++|||++.+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~~--~---~~~---~~~~d~lliDdi~~~   97 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIFF--N---EEI---LEKYNAFIIEDIENW   97 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhhh--c---hhH---HhcCCEEEEeccccc
Confidence            569999999999999999999987643322  1110  0   011   124468999999976

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.15  E-value=1.3e-09  Score=95.17  Aligned_cols=90  Identities=21%  Similarity=0.376  Sum_probs=60.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.++..+.+.+.    .+        ..+..+|||||||+|||++|+++|+.+..                 
T Consensus        15 ~~~diiGq~~~v~~L~~~i~----~~--------~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~   82 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALR----FN--------RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCK   82 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHH
Confidence            58999999877666544443    21        12456999999999999999999998843                 


Q ss_pred             --------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 --------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 --------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                              .++.++.....+...++.+....      ....+++|||+|.++-
T Consensus        83 ~i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~  135 (451)
T PRK06305         83 EISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTK  135 (451)
T ss_pred             HHhcCCCCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCH
Confidence                    23344433333334444332222      3678999999999943

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.15  E-value=1.6e-09  Score=98.47  Aligned_cols=90  Identities=22%  Similarity=0.452  Sum_probs=60.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++++|++.+.+.+...+.    ..        ..+.++|||||+|+|||++|+++|+.+.+.                
T Consensus        16 ~f~dIiGQe~~v~~L~~aI~----~~--------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~   83 (725)
T PRK07133         16 TFDDIVGQDHIVQTLKNIIK----SN--------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENV   83 (725)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhh
Confidence            58899999877766655443    11        124568999999999999999999988542                


Q ss_pred             -----eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           65 -----VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        65 -----~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                           ++.++..+-.+...+++++...      ....|++|||+|.++.
T Consensus        84 ~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~  132 (725)
T PRK07133         84 NNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSK  132 (725)
T ss_pred             cCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCH
Confidence                 2223332212234455554443      2567999999999953

>PRK12377 putative replication protein; Provisional

Probab=99.15  E-value=2e-10  Score=92.65  Aligned_cols=93  Identities=18%  Similarity=0.270  Sum_probs=62.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC--
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE--   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~--   75 (204)
                      +|+++....+....+...+..+...-.       ....+++|+||||||||+||.++++.+   |.++..++..++..  
T Consensus        72 tFdnf~~~~~~~~~a~~~a~~~a~~~~-------~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l  144 (248)
T PRK12377         72 SFANYQVQNDGQRYALSQAKSIADELM-------TGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRL  144 (248)
T ss_pred             CcCCcccCChhHHHHHHHHHHHHHHHH-------hcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHH
Confidence            577776544333334444444432211       113579999999999999999999998   67787777765432  


Q ss_pred             ------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 ------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                            .....+.+..+....+|+|||++..
T Consensus       145 ~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~  175 (248)
T PRK12377        145 HESYDNGQSGEKFLQELCKVDLLVLDEIGIQ  175 (248)
T ss_pred             HHHHhccchHHHHHHHhcCCCEEEEcCCCCC
Confidence                  1123355666778889999999875

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.15  E-value=4.7e-10  Score=100.11  Aligned_cols=98  Identities=19%  Similarity=0.229  Sum_probs=65.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh-------HHHHHHHHhcCCCeEEEEecCCccch---
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN-------MELRNMLIATKNKSILVVGDIDYLTL---  102 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~il~iDeid~~~~---  102 (204)
                      +.++|||++|+|||+|++++++++     +..+++++...+...       ..+......+....+|+|||++.+..   
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~  394 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKES  394 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHH
Confidence            349999999999999999999987     567888877654211       11112222334568999999998810   


Q ss_pred             ---------h------------------------hhhhccccc--eeEecCCCCHHHHHHHHHHhhCCC
Q 041769          103 ---------H------------------------ILLRSSCMD--MHIHMSYCTPFRFKMLASNYFGIT  136 (204)
Q Consensus       103 ---------~------------------------a~~r~~R~~--~~i~~~~p~~~~~~~i~~~~~~~~  136 (204)
                               +                        .-++ +||.  ..+.+..|+.+.+..|+.......
T Consensus       395 tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~-SRf~~GLvv~I~~PD~EtR~aIL~kka~~r  462 (617)
T PRK14086        395 TQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLR-NRFEWGLITDVQPPELETRIAILRKKAVQE  462 (617)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHH-hhhhcCceEEcCCCCHHHHHHHHHHHHHhc
Confidence                     0                        1122 3664  555778888888887777655433

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.15  E-value=1.6e-09  Score=96.77  Aligned_cols=95  Identities=20%  Similarity=0.397  Sum_probs=63.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.++..+...+.    .+.        .+..+|||||+|+|||++|+++|+.+..                 
T Consensus        14 ~f~diiGqe~iv~~L~~~i~----~~~--------i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~   81 (563)
T PRK06647         14 DFNSLEGQDFVVETLKHSIE----SNK--------IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKS   81 (563)
T ss_pred             CHHHccCcHHHHHHHHHHHH----cCC--------CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHH
Confidence            58999999887777655554    111        2456999999999999999999999854                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhh
Q 041769           64 -------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLR  107 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r  107 (204)
                             +++.++...-.....++++....      ....+++|||++.++-   +++++
T Consensus        82 i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK  141 (563)
T PRK06647         82 IDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLK  141 (563)
T ss_pred             HHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHH
Confidence                   23333332222234555554322      3567999999999953   35555

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.15  E-value=1.2e-09  Score=102.06  Aligned_cols=92  Identities=14%  Similarity=0.366  Sum_probs=60.7

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCc-eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKH-SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~-g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      +.|+|++.....+...+......      +.-+ .|. .++|+||||||||++|++|++.+   +.+++.++++.+....
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~g------l~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~  641 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAG------LSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKH  641 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhc------ccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhh
Confidence            56788877777776666543210      0111 122 48999999999999999999987   4568888888764332


Q ss_pred             HHHHHHH------------------hcCCCeEEEEecCCcc
Q 041769           78 ELRNMLI------------------ATKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~~~~~~~------------------~~~~~~il~iDeid~~  100 (204)
                      .....+.                  ...+.++|+|||++.+
T Consensus       642 ~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka  682 (857)
T PRK10865        642 SVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKA  682 (857)
T ss_pred             hHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhC
Confidence            2222221                  1124589999999988

>PRK08939 primosomal protein DnaI; Reviewed

Probab=99.13  E-value=2.6e-10  Score=94.82  Aligned_cols=98  Identities=21%  Similarity=0.310  Sum_probs=65.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC--
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE--   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~--   75 (204)
                      +|+++...+..+..+......|+....   .  -+.+.|++|+||+|||||+|+.++|+++   |.++..+.++.+..  
T Consensus       125 tf~~~~~~~~~~~~~~~~~~~fi~~~~---~--~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~l  199 (306)
T PRK08939        125 SLADIDLDDRDRLDALMAALDFLEAYP---P--GEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIREL  199 (306)
T ss_pred             cHHHhcCCChHHHHHHHHHHHHHHHhh---c--cCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHH
Confidence            356666554344444444444443211   0  1235789999999999999999999998   77888877765421  


Q ss_pred             -----hHHHHHHHHhcCCCeEEEEecCCccchh
Q 041769           76 -----NMELRNMLIATKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        76 -----~~~~~~~~~~~~~~~il~iDeid~~~~~  103 (204)
                           ...+.+.+.......+|+|||+....++
T Consensus       200 k~~~~~~~~~~~l~~l~~~dlLiIDDiG~e~~s  232 (306)
T PRK08939        200 KNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMS  232 (306)
T ss_pred             HHHHhcCcHHHHHHHhcCCCEEEEecCCCcccc
Confidence                 1234556666778889999999986443

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

Probab=99.13  E-value=7.7e-10  Score=87.39  Aligned_cols=124  Identities=22%  Similarity=0.339  Sum_probs=100.3

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENME   78 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~   78 (204)
                      +.+++|.+.+++.+.++...|.....         ..++||||.-|||||++++|+-.++   |..++.++-.++..-..
T Consensus        59 L~~l~Gvd~qk~~L~~NT~~F~~G~p---------ANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~  129 (287)
T COG2607          59 LADLVGVDRQKEALVRNTEQFAEGLP---------ANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPD  129 (287)
T ss_pred             HHHHhCchHHHHHHHHHHHHHHcCCc---------ccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhHHH
Confidence            46788999999999999998876332         3569999999999999999999988   67899999999888888


Q ss_pred             HHHHHHhcCCCeEEEEecCCcc----------------------------chh---------------------------
Q 041769           79 LRNMLIATKNKSILVVGDIDYL----------------------------TLH---------------------------  103 (204)
Q Consensus        79 ~~~~~~~~~~~~il~iDeid~~----------------------------~~~---------------------------  103 (204)
                      +.+.+...+..-|||.||+.--                            |.+                           
T Consensus       130 l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveE  209 (287)
T COG2607         130 LVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEE  209 (287)
T ss_pred             HHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCcccccChhHHHHH
Confidence            8999999999999999998654                            000                           


Q ss_pred             hhhhccccceeEecCCCCHHHHHHHHHHhhC
Q 041769          104 ILLRSSCMDMHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       104 a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                      .+--+.||..-+.|..++..+...+...|..
T Consensus       210 KlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~  240 (287)
T COG2607         210 KLSLSDRFGLWLSFYPCDQDEYLKIVDHYAK  240 (287)
T ss_pred             hhchhhhcceeecccCCCHHHHHHHHHHHHH
Confidence            1222468888888888888888777776653

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.11  E-value=2.9e-10  Score=91.48  Aligned_cols=93  Identities=22%  Similarity=0.355  Sum_probs=63.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC--
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE--   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~--   75 (204)
                      +|+++....+....+...+..+.....       ....+++|+|+||||||+|+.+++.++   |.+++.++..++..  
T Consensus        70 tFdnf~~~~~~q~~al~~a~~~~~~~~-------~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l  142 (244)
T PRK07952         70 SFENYRVECEGQMNALSKARQYVEEFD-------GNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAM  142 (244)
T ss_pred             ccccccCCCchHHHHHHHHHHHHHhhc-------cCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHH
Confidence            577776554444444455554443211       112479999999999999999999998   77888888766531  


Q ss_pred             -------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 -------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 -------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                             .....+++.......+|+|||++..
T Consensus       143 ~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~  174 (244)
T PRK07952        143 KDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQ  174 (244)
T ss_pred             HHHHhhccccHHHHHHHhccCCEEEEeCCCCC
Confidence                   1123355666667889999999986

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.11  E-value=3.2e-09  Score=95.39  Aligned_cols=89  Identities=18%  Similarity=0.420  Sum_probs=62.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++|+|++.++..+...+.    ..        ..+.++||+||+|+|||++|+++|+.+.+.                
T Consensus        22 ~f~dliGq~~~v~~L~~~~~----~g--------ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c   89 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFE----TG--------RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVG   89 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cC--------CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCccc
Confidence            58999999877777655443    11        124569999999999999999999988542                


Q ss_pred             -------------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccc
Q 041769           65 -------------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLT  101 (204)
Q Consensus        65 -------------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~  101 (204)
                                   ++.++..+..+...+++++...      ....|++|||+|.++
T Consensus        90 ~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls  145 (598)
T PRK09111         90 EHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLS  145 (598)
T ss_pred             HHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCC
Confidence                         2233333333445666665544      256899999999994

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.11  E-value=4.6e-09  Score=94.87  Aligned_cols=90  Identities=21%  Similarity=0.369  Sum_probs=62.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++.+...+...+..    .        ....++||+||+|+|||++|+++|+.+.+                 
T Consensus        14 ~f~~liGq~~i~~~L~~~l~~----~--------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C   81 (620)
T PRK14948         14 RFDELVGQEAIATTLKNALIS----N--------RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELC   81 (620)
T ss_pred             cHhhccChHHHHHHHHHHHHc----C--------CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHH
Confidence            478999998777666544442    1        12356999999999999999999999865                 


Q ss_pred             ---------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 ---------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 ---------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                               .++.++.........+++++...      ....|++|||+|.++.
T Consensus        82 ~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~  135 (620)
T PRK14948         82 RAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLST  135 (620)
T ss_pred             HHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCH
Confidence                     23334433323345666666554      2457999999999943

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

Probab=99.10  E-value=4e-10  Score=96.83  Aligned_cols=97  Identities=26%  Similarity=0.358  Sum_probs=63.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHH-HH---hCCCC-CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC---
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFY-RN---VGKAW-KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE---   75 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~-~~---~~~~~-~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~---   75 (204)
                      .++|+++.++.+...+..++..-... ..   -++.. ..+++|+||||||||++|+++|..++.++..+++..+..   
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            45788888777766655444321110 00   01111 346999999999999999999999999998888766532   


Q ss_pred             -----hHHHHHHHHhc------CCCeEEEEecCCcc
Q 041769           76 -----NMELRNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        76 -----~~~~~~~~~~~------~~~~il~iDeid~~  100 (204)
                           ...+...+...      ..+++|+|||+|.+
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl  193 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKI  193 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchh
Confidence                 12233333322      25679999999987

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=3.4e-09  Score=95.46  Aligned_cols=90  Identities=19%  Similarity=0.399  Sum_probs=61.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++|+|++.++..+...+..    .        ..+..+|||||+|+|||++++++|+.+++                 
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~----~--------~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~   81 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAE----G--------RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCR   81 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHh----C--------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHH
Confidence            589999998877776444431    1        12345899999999999999999998743                 


Q ss_pred             --------ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 --------DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 --------~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                              .++.++.........++++....      ....|++|||+|.++.
T Consensus        82 ~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~  134 (585)
T PRK14950         82 AIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLST  134 (585)
T ss_pred             HHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCH
Confidence                    23334443333344555554432      3567999999999843

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.10  E-value=2e-09  Score=94.04  Aligned_cols=63  Identities=25%  Similarity=0.570  Sum_probs=46.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh---------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN---------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .+++|||++|+|||+|++++++++     +..+++++...+...         ..+.+....+....+|+|||++.+
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l  218 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFL  218 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccc
Confidence            459999999999999999999965     467788877654211         122333334456779999999987

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.08  E-value=3.5e-09  Score=95.60  Aligned_cols=90  Identities=17%  Similarity=0.456  Sum_probs=63.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC------------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN------------------   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~------------------   62 (204)
                      +|++|+|++.+...+...+.    ...        .+..+|||||+|+|||++|+.+|+.+.                  
T Consensus        15 ~f~~viGq~~~~~~L~~~i~----~~~--------l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~   82 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIA----TNK--------LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCV   82 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHH----cCC--------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHH
Confidence            58999999877776655443    211        245599999999999999999999875                  


Q ss_pred             -------CceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           63 -------FDVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        63 -------~~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             .+++.++..+......++.++..+      ....+++|||++.++.
T Consensus        83 ~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~  135 (614)
T PRK14971         83 AFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQ  135 (614)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCH
Confidence                   344555554433345666666443      2567999999999954

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.08  E-value=3e-09  Score=90.34  Aligned_cols=62  Identities=16%  Similarity=0.304  Sum_probs=45.2

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---------CceEEeecCCc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---------FDVYDLELTTF   73 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---------~~~~~~~~~~~   73 (204)
                      +++++.++..+.+...+......         ..+..++++||||||||++++.+++.+.         ..++++++...
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~---------~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~   85 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRG---------SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQIL   85 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCC
Confidence            56778887777776666654321         1235699999999999999999998763         46777776554

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.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.08  E-value=3.6e-09  Score=88.02  Aligned_cols=89  Identities=21%  Similarity=0.304  Sum_probs=55.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~~~   75 (204)
                      +|++++|++++...+...+.    ..         ...+++||||||+|||++++++++.+.     ..++.++.++...
T Consensus        15 ~~~~~~g~~~~~~~l~~~i~----~~---------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~   81 (319)
T PRK00440         15 TLDEIVGQEEIVERLKSYVK----EK---------NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERG   81 (319)
T ss_pred             cHHHhcCcHHHHHHHHHHHh----CC---------CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccc
Confidence            46788888766666544432    11         123489999999999999999999873     2345555444332


Q ss_pred             hHHHHHHHHh----c----CCCeEEEEecCCccch
Q 041769           76 NMELRNMLIA----T----KNKSILVVGDIDYLTL  102 (204)
Q Consensus        76 ~~~~~~~~~~----~----~~~~il~iDeid~~~~  102 (204)
                      ...+...+..    .    ....+++|||+|.++.
T Consensus        82 ~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~  116 (319)
T PRK00440         82 IDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS  116 (319)
T ss_pred             hHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH
Confidence            2222222211    1    2356999999999843

>PRK09087 hypothetical protein; Validated

Probab=99.07  E-value=3.6e-09  Score=84.39  Aligned_cols=54  Identities=20%  Similarity=0.235  Sum_probs=36.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .++||||+|+|||||+++++...+..++.  ...+..     ..+.... ..+|+|||++.+
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~~~~~~~i~--~~~~~~-----~~~~~~~-~~~l~iDDi~~~   99 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWREKSDALLIH--PNEIGS-----DAANAAA-EGPVLIEDIDAG   99 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhcCCEEec--HHHcch-----HHHHhhh-cCeEEEECCCCC
Confidence            49999999999999999999877555333  321111     1111111 258889999876

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.07  E-value=2.1e-09  Score=93.74  Aligned_cols=63  Identities=24%  Similarity=0.549  Sum_probs=43.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh-------HHHHHHHHhcC-CCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN-------MELRNMLIATK-NKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~-------~~~~~~~~~~~-~~~il~iDeid~~  100 (204)
                      .+++||||||+|||+|++++++++     +..+++++...+...       ..+.+...... ...+|+|||++.+
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l  206 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFL  206 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhh
Confidence            459999999999999999999986     456777776553211       11112222222 4679999999965

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

Probab=99.05  E-value=1.8e-09  Score=88.58  Aligned_cols=63  Identities=27%  Similarity=0.475  Sum_probs=50.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----HHH----HHHHHhc------CCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----MEL----RNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----~~~----~~~~~~~------~~~~il~iDeid~~  100 (204)
                      ..+|+.||+|||||.||+.||+.++.|+...|+..+...    .++    .++++++      +..+|++|||||.+
T Consensus        98 SNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKI  174 (408)
T COG1219          98 SNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKI  174 (408)
T ss_pred             ccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhh
Confidence            459999999999999999999999999999998877421    233    3444444      26799999999999

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.04  E-value=2.6e-10  Score=87.17  Aligned_cols=65  Identities=20%  Similarity=0.466  Sum_probs=51.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC----ceEEeecCCccC----hHHHHHHHHhcC------CCeEEEEecCCccch
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF----DVYDLELTTFKE----NMELRNMLIATK------NKSILVVGDIDYLTL  102 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~----~~~~~~~~~~~~----~~~~~~~~~~~~------~~~il~iDeid~~~~  102 (204)
                      ..++|+||+|+|||.+++++|+.+..    +++.+|++.+..    ...+...+....      ..+||++||||+...
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~~   82 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAHP   82 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCSH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhccc
Confidence            34899999999999999999999995    999999999877    444444444432      346999999999855

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=1.1e-09  Score=99.69  Aligned_cols=86  Identities=21%  Similarity=0.414  Sum_probs=62.3

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      +|-|+|.++...++.+.+..-.             ++.-+|+|+||+|||.++..+|...          +..++.+|++
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~-------------KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g  235 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRT-------------KNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG  235 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccC-------------CCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH
Confidence            4667777766666655554222             2346789999999999999999987          5688999998


Q ss_pred             CccCh--------HHHHHHHHhcC--CCeEEEEecCCcc
Q 041769           72 TFKEN--------MELRNMLIATK--NKSILVVGDIDYL  100 (204)
Q Consensus        72 ~~~~~--------~~~~~~~~~~~--~~~il~iDeid~~  100 (204)
                      .+...        ..+..++....  .+.||||||++.+
T Consensus       236 ~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHti  274 (786)
T COG0542         236 SLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTI  274 (786)
T ss_pred             HHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhh
Confidence            87543        33444444442  4899999999988

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

Probab=99.04  E-value=2e-10  Score=100.58  Aligned_cols=168  Identities=17%  Similarity=0.330  Sum_probs=97.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----------------   64 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~----------------   64 (204)
                      +|++++|++-+...+...+.    ....        ..+++|.||.||||||+||.+|+.+++.                
T Consensus        14 ~F~evvGQe~v~~~L~nal~----~~ri--------~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~   81 (515)
T COG2812          14 TFDDVVGQEHVVKTLSNALE----NGRI--------AHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKE   81 (515)
T ss_pred             cHHHhcccHHHHHHHHHHHH----hCcc--------hhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHh
Confidence            58899999766666644443    2222        4569999999999999999999999643                


Q ss_pred             --------eEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCccch---hhhhhc-cccceeEecCCCCHHHH-
Q 041769           65 --------VYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDYLTL---HILLRS-SCMDMHIHMSYCTPFRF-  125 (204)
Q Consensus        65 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~~~~---~a~~r~-~R~~~~i~~~~p~~~~~-  125 (204)
                              ++.+|..+-.+..+++++.+..      .++.|++|||++.++.   ++++.. .--..++.|.+-+.+.. 
T Consensus        82 I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~K  161 (515)
T COG2812          82 INEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQK  161 (515)
T ss_pred             hhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCc
Confidence                    2223333334457777777776      2678999999999944   466663 11113333333333221 


Q ss_pred             --HHHHHH-----hhCCCCCCcHHHHHHHhhhCCCC-HHHHHHHHhcCC--CHHHHHHhHHHHHH
Q 041769          126 --KMLASN-----YFGITEHPLLTEIDELIEKANVT-LADVVEQLMRNK--VPEIALRGLTDVFK  180 (204)
Q Consensus       126 --~~i~~~-----~~~~~~~~~~~~~~~~~~~~~l~-~~~i~~~~~~~~--~~~~~~~~~~~~~~  180 (204)
                        ..|++|     |.......+...+..++..+++. ..+...++.+..  ..++++..+.+.+.
T Consensus       162 ip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~  226 (515)
T COG2812         162 IPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIA  226 (515)
T ss_pred             CchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHH
Confidence              122222     22223334555566667666665 333444444432  33444444444443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.04  E-value=2.4e-09  Score=93.29  Aligned_cols=63  Identities=25%  Similarity=0.460  Sum_probs=45.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh-------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN-------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .+++||||||+|||+|++++++++   +..+++++...+...       ......-.......+|+|||++.+
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l  214 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVF  214 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhh
Confidence            469999999999999999999987   678888776543211       111111112346679999999987

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

Probab=99.04  E-value=3.9e-09  Score=94.90  Aligned_cols=131  Identities=15%  Similarity=0.286  Sum_probs=95.5

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------ChHHHHHHHHhcC--CCeEEEEecCCccchh--
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------ENMELRNMLIATK--NKSILVVGDIDYLTLH--  103 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~--~~~il~iDeid~~~~~--  103 (204)
                      ......+||+|+||+|||++++++|.++|.+++.++..++.      .+..+...|..+.  .++|||+-.+|.+..+  
T Consensus       428 ~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~d  507 (953)
T KOG0736|consen  428 LTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQD  507 (953)
T ss_pred             cccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecCC
Confidence            33445599999999999999999999999999999987763      2345566666664  7999999999998221  


Q ss_pred             ----------------------------------------hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHH
Q 041769          104 ----------------------------------------ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTE  143 (204)
Q Consensus       104 ----------------------------------------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~  143 (204)
                                                              +-.+ +-|-.+|.++.|+.++|..+++-|.....-.....
T Consensus       508 gged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~-~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v~  586 (953)
T KOG0736|consen  508 GGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQ-SLFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVN  586 (953)
T ss_pred             CchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHH-HhhhhhccCCCCCHHHHHHHHHHHHhccccchHHH
Confidence                                                    2222 25668899999999999999987776543333334


Q ss_pred             HHHHhhh-CCCCHHHHHHHHhcC
Q 041769          144 IDELIEK-ANVTLADVVEQLMRN  165 (204)
Q Consensus       144 ~~~~~~~-~~l~~~~i~~~~~~~  165 (204)
                      ...++.. -+|+.+++..++.+.
T Consensus       587 ~k~~a~~t~gfs~~~L~~l~~~~  609 (953)
T KOG0736|consen  587 LKQLARKTSGFSFGDLEALVAHS  609 (953)
T ss_pred             HHHHHHhcCCCCHHHHHHHhcCc
Confidence            4444443 577888877766443

>PRK08116 hypothetical protein; Validated

Probab=99.04  E-value=1.2e-09  Score=89.37  Aligned_cols=95  Identities=21%  Similarity=0.348  Sum_probs=60.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh-
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN-   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~-   76 (204)
                      +|+++...+.. ..+...+..+...-   ... ...+.|++|+|+||||||+||.++++++   +.+++.++.+.+... 
T Consensus        83 tFdnf~~~~~~-~~a~~~a~~y~~~~---~~~-~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i  157 (268)
T PRK08116         83 TFENFLFDKGS-EKAYKIARKYVKKF---EEM-KKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRI  157 (268)
T ss_pred             chhcccCChHH-HHHHHHHHHHHHHH---Hhh-ccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH
Confidence            46777644333 22334444443321   111 1224679999999999999999999987   778888887654211 


Q ss_pred             ---------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           77 ---------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        77 ---------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                               ......+.......+|+|||++..
T Consensus       158 ~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e  190 (268)
T PRK08116        158 KSTYKSSGKEDENEIIRSLVNADLLILDDLGAE  190 (268)
T ss_pred             HHHHhccccccHHHHHHHhcCCCEEEEecccCC
Confidence                     122344555566779999999754

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.02  E-value=1.5e-08  Score=93.12  Aligned_cols=90  Identities=24%  Similarity=0.422  Sum_probs=58.2

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTT   72 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~   72 (204)
                      +.|++.++...+|...+...+..        -.....++++|+||||||++++.+.+++          ...++.+++..
T Consensus       755 D~LPhREeEIeeLasfL~paIkg--------sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~  826 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQ--------SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN  826 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhc--------CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc
Confidence            45667777777776666655432        1112335799999999999999998876          25567888754


Q ss_pred             ccCh-----------------------HHHHHHHHhc----CCCeEEEEecCCcc
Q 041769           73 FKEN-----------------------MELRNMLIAT----KNKSILVVGDIDYL  100 (204)
Q Consensus        73 ~~~~-----------------------~~~~~~~~~~----~~~~il~iDeid~~  100 (204)
                      +...                       ..+..+|...    ....||+|||+|.+
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L  881 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL  881 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence            3322                       1222333322    12469999999998

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.02  E-value=1.6e-09  Score=90.10  Aligned_cols=64  Identities=22%  Similarity=0.309  Sum_probs=47.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHH-------------------HHHhcCCCeEEEEecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRN-------------------MLIATKNKSILVVGDI   97 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~il~iDei   97 (204)
                      +++++|.||||||||++++.+|..++.+++.+++.......++..                   +..+...+.++++||+
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDEi  143 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDEY  143 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEechh
Confidence            566999999999999999999999999999998766432211100                   0111135678999999


Q ss_pred             Ccc
Q 041769           98 DYL  100 (204)
Q Consensus        98 d~~  100 (204)
                      |..
T Consensus       144 n~a  146 (327)
T TIGR01650       144 DAG  146 (327)
T ss_pred             hcc
Confidence            988

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.98  E-value=3.2e-08  Score=84.92  Aligned_cols=62  Identities=18%  Similarity=0.278  Sum_probs=41.8

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTF   73 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~   73 (204)
                      +.+++.++..+.+...+......         ..+..+++|||||+|||++++.+++.+     +..++++++...
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~---------~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~   96 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRG---------SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQID   96 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcC
Confidence            34555555555555555433221         123459999999999999999999887     466778876543

>PRK08181 transposase; Validated

Probab=98.97  E-value=1.2e-09  Score=89.09  Aligned_cols=64  Identities=28%  Similarity=0.520  Sum_probs=49.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC-------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE-------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.+++|+||||||||+|+.+++.++   |..+++++..++..       .....+.+.......+|+|||++..
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~  179 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYV  179 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccc
Confidence            4569999999999999999999765   77888887765422       1233455566677889999999876

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

Probab=98.97  E-value=7.2e-09  Score=92.57  Aligned_cols=124  Identities=24%  Similarity=0.348  Sum_probs=85.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC----ceEEeecCCccCh------HHHHHHHHhc--CCCeEEEEecCCcc----
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF----DVYDLELTTFKEN------MELRNMLIAT--KNKSILVVGDIDYL----  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~----~~~~~~~~~~~~~------~~~~~~~~~~--~~~~il~iDeid~~----  100 (204)
                      +.+++|+||+|+|||.|+++++.++..    .+..++++.+...      ..+..+|...  ..|+||++|++|.+    
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s  510 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLASAS  510 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhccC
Confidence            445999999999999999999999954    4556777776533      2334444444  47999999999998    


Q ss_pred             ------------------------------------------chh-hhhhccccceeEecCCCCHHHHHHHHHHhhCCCC
Q 041769          101 ------------------------------------------TLH-ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITE  137 (204)
Q Consensus       101 ------------------------------------------~~~-a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~  137 (204)
                                                                +++ .+..+.+|+.++.++.|...+|..|+...+....
T Consensus       511 ~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~  590 (952)
T KOG0735|consen  511 SNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNL  590 (952)
T ss_pred             cccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhh
Confidence                                                      111 3344679999999999999999999887776542


Q ss_pred             CC-cHHHHHHHh-hhCCCCHHHHHH
Q 041769          138 HP-LLTEIDELI-EKANVTLADVVE  160 (204)
Q Consensus       138 ~~-~~~~~~~~~-~~~~l~~~~i~~  160 (204)
                      .. ....+..+. +..||.+-|+.-
T Consensus       591 ~~~~~~dLd~ls~~TEGy~~~DL~i  615 (952)
T KOG0735|consen  591 SDITMDDLDFLSVKTEGYLATDLVI  615 (952)
T ss_pred             hhhhhHHHHHHHHhcCCccchhHHH
Confidence            11 122233222 235676655544

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=4.8e-08  Score=83.11  Aligned_cols=88  Identities=17%  Similarity=0.309  Sum_probs=60.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc-----eEEeecCCccChHH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD-----VYDLELTTFKENME   78 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~-----~~~~~~~~~~~~~~   78 (204)
                      .+.+.+++..++...+...+...         .|..+++|||||||||.+++.+++++...     ++++|+..+.+...
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~---------~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~   88 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGE---------RPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQ   88 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCC---------CCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHH
Confidence            45666777777766655544322         14459999999999999999999999443     78888876654322


Q ss_pred             H-HHHHH------------------------hcCCCeEEEEecCCcc
Q 041769           79 L-RNMLI------------------------ATKNKSILVVGDIDYL  100 (204)
Q Consensus        79 ~-~~~~~------------------------~~~~~~il~iDeid~~  100 (204)
                      + .+++.                        ......|+++||+|.+
T Consensus        89 i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L  135 (366)
T COG1474          89 VLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL  135 (366)
T ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence            1 22222                        2234689999999998

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=98.96  E-value=4.5e-10  Score=82.62  Aligned_cols=62  Identities=26%  Similarity=0.417  Sum_probs=46.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHh---------------cCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIA---------------TKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~il~iDeid~~  100 (204)
                      +++|+||||+|||++++.+|+.++.++..+++.......++......               ...+.+++|||++..
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a   77 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRA   77 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG-
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccC
Confidence            48999999999999999999999999999998876554433211110               015789999999987

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

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

Probab=98.96  E-value=3.3e-09  Score=86.02  Aligned_cols=68  Identities=28%  Similarity=0.460  Sum_probs=51.5

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh-------HHHHH-HHHhcCCCeEEEEecCCccchh
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN-------MELRN-MLIATKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~-------~~~~~-~~~~~~~~~il~iDeid~~~~~  103 (204)
                      .+.+++|+||||||||+||-||+.++   |.++..++..++...       ..... +........+|+|||+.....+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~~  182 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPFS  182 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCccCC
Confidence            46789999999999999999999998   788888888775321       12222 2333667889999999987443

>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=98.94  E-value=5.3e-09  Score=76.10  Aligned_cols=64  Identities=31%  Similarity=0.541  Sum_probs=48.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHH-----------HHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRN-----------MLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDeid~~  100 (204)
                      +.+++++||||+|||++++.+++.+   +.+++.++............           .......+.++++||++.+
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~   96 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL   96 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhh
Confidence            4569999999999999999999998   88898888876543322221           1122246789999999975

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.93  E-value=9.7e-09  Score=91.48  Aligned_cols=59  Identities=20%  Similarity=0.358  Sum_probs=41.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|++++|++...+.+...+   .          -+.+.+++|+||||||||++|+++.+..          +.+++.+++
T Consensus        63 ~f~~iiGqs~~i~~l~~al---~----------~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~  129 (531)
T TIGR02902        63 SFDEIIGQEEGIKALKAAL---C----------GPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDA  129 (531)
T ss_pred             CHHHeeCcHHHHHHHHHHH---h----------CCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcc
Confidence            4778888876665553221   0          1224569999999999999999998642          356788886


Q ss_pred             CC
Q 041769           71 TT   72 (204)
Q Consensus        71 ~~   72 (204)
                      ..
T Consensus       130 ~~  131 (531)
T TIGR02902       130 TT  131 (531)
T ss_pred             cc
Confidence            53

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.92  E-value=3.2e-09  Score=76.49  Aligned_cols=64  Identities=27%  Similarity=0.466  Sum_probs=46.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc---eEEeecCCccC--------------------hHHHHHHHHhcC--CCeE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD---VYDLELTTFKE--------------------NMELRNMLIATK--NKSI   91 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~---~~~~~~~~~~~--------------------~~~~~~~~~~~~--~~~i   91 (204)
                      +..++|+||||||||++++.+++.+...   ++.++......                    .......+..+.  .+.+
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            3469999999999999999999999775   77777665321                    112222233322  3499


Q ss_pred             EEEecCCcc
Q 041769           92 LVVGDIDYL  100 (204)
Q Consensus        92 l~iDeid~~  100 (204)
                      |++||++.+
T Consensus        82 iiiDei~~~   90 (148)
T smart00382       82 LILDEITSL   90 (148)
T ss_pred             EEEECCccc
Confidence            999999998

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.91  E-value=5.9e-08  Score=86.67  Aligned_cols=90  Identities=16%  Similarity=0.202  Sum_probs=63.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENME   78 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~   78 (204)
                      |+.++|.+....++.+.+.....           ....++|+|++|||||++|++|....   +.+++.+|+..+.. ..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~-----------~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~-~~  262 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVAR-----------SNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE-TL  262 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhC-----------cCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH-HH
Confidence            56778887777776666554432           13349999999999999999999876   46899999988743 22


Q ss_pred             HHH-HHH-----------------hcCCCeEEEEecCCccchh
Q 041769           79 LRN-MLI-----------------ATKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        79 ~~~-~~~-----------------~~~~~~il~iDeid~~~~~  103 (204)
                      +.. +|.                 ....++.|||||++.++..
T Consensus       263 ~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~  305 (534)
T TIGR01817       263 LESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPA  305 (534)
T ss_pred             HHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHH
Confidence            222 221                 1135689999999999443

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.89  E-value=4.2e-08  Score=88.83  Aligned_cols=60  Identities=18%  Similarity=0.400  Sum_probs=41.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|++++|++.....+.+.+             ..+.+.+++|+||||||||++|+++.+..          +.+++.++.
T Consensus       152 ~~~~iiGqs~~~~~l~~~i-------------a~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~  218 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKV-------------ASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDG  218 (615)
T ss_pred             cHHhceeCcHHHHHHHHHH-------------hcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEec
Confidence            4677778776655543222             11224569999999999999999998766          245777776


Q ss_pred             CCc
Q 041769           71 TTF   73 (204)
Q Consensus        71 ~~~   73 (204)
                      ..+
T Consensus       219 ~~l  221 (615)
T TIGR02903       219 TTL  221 (615)
T ss_pred             hhc
Confidence            554

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.

>PRK06921 hypothetical protein; Provisional

Probab=98.87  E-value=1.4e-08  Score=82.87  Aligned_cols=63  Identities=29%  Similarity=0.335  Sum_probs=45.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCccCh-----HHHHHHHHhcCCCeEEEEecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTFKEN-----MELRNMLIATKNKSILVVGDIDY   99 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~il~iDeid~   99 (204)
                      ..+++|+||||+|||+|+.++|+++    |..+++++..++...     ....+.+.......+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence            4679999999999999999999987    567777776543211     11223344556778999999953

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

Probab=98.86  E-value=1.9e-09  Score=82.89  Aligned_cols=65  Identities=28%  Similarity=0.502  Sum_probs=47.5

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc-------ChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK-------ENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .+.+++|+||||||||++|.++++++   |.++..++.+++.       ......+.+.......+|+|||+...
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~  120 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYE  120 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccccccEeccccccee
Confidence            35689999999999999999999877   8888888877652       12233445555567789999999876

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.

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.85  E-value=1.6e-08  Score=86.44  Aligned_cols=61  Identities=28%  Similarity=0.467  Sum_probs=40.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CC--ceEEeecCCccC-------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NF--DVYDLELTTFKE-------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~--~~~~~~~~~~~~-------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .++||||+|+|||||++|++.+.   +.  .+++++......       ...+.+.-..+ .-.+++|||++.+
T Consensus       115 plfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y-~~dlllIDDiq~l  187 (408)
T COG0593         115 PLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY-SLDLLLIDDIQFL  187 (408)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh-ccCeeeechHhHh
Confidence            39999999999999999999988   33  455554433211       11111222223 4569999999998

>PHA02244 ATPase-like protein

Probab=98.85  E-value=1.2e-08  Score=86.20  Aligned_cols=64  Identities=22%  Similarity=0.389  Sum_probs=46.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC----c----cChHHH--HHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT----F----KENMEL--RNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~----~----~~~~~~--~~~~~~~~~~~il~iDeid~~  100 (204)
                      +..++|+||||||||++|+++|+.++.+++.++...    +    .....+  ...+.+...+++++|||++.+
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a  192 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDAS  192 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcC
Confidence            345999999999999999999999999999887321    0    000111  123333467899999999976

>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=98.84  E-value=1.6e-08  Score=80.90  Aligned_cols=65  Identities=22%  Similarity=0.253  Sum_probs=55.1

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhc-CCCeEEEEecCCcc
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIAT-KNKSILVVGDIDYL  100 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iDeid~~  100 (204)
                      ...|-.++||+|||||++++.+|+.+|..++.++.+.......+.+++... ..++++++||++.+
T Consensus        31 ~~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~~~GaW~cfdefnrl   96 (231)
T PF12774_consen   31 LNLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLAQSGAWLCFDEFNRL   96 (231)
T ss_dssp             TTTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHHHHT-EEEEETCCCS
T ss_pred             cCCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHhhcCchhhhhhhhhh
Confidence            346677999999999999999999999999999999988888888998776 47889999999999

>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=98.84  E-value=9e-09  Score=80.32  Aligned_cols=47  Identities=30%  Similarity=0.526  Sum_probs=34.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +|++|.|++..|..+.-...            |   +.+++++||||||||++|+.+...++
T Consensus         1 Df~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lLP   47 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLLP   47 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS-
T ss_pred             ChhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhCC
Confidence            58999999888877632222            1   35699999999999999999999884

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.82  E-value=2e-08  Score=84.28  Aligned_cols=63  Identities=24%  Similarity=0.303  Sum_probs=47.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh---------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN---------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .+++||||+|||||+|+.++|+++   |..+++++...+...         ......+.......+|+|||+...
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e  258 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTE  258 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCC
Confidence            679999999999999999999998   778888887664211         111222455556789999999876

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.81  E-value=1.6e-06  Score=72.45  Aligned_cols=90  Identities=19%  Similarity=0.328  Sum_probs=60.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC--------ceEEeec-C
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF--------DVYDLEL-T   71 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~--------~~~~~~~-~   71 (204)
                      +|++++|++.+++.+.+.+.    .+        ..+..++|+||+|+|||++|+.+|+.+-+        .+..+.. .
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~----~~--------~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~   69 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSII----KN--------RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN   69 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHH----cC--------CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc
Confidence            58999999877777655542    11        22456899999999999999999998622        3334433 1


Q ss_pred             C-ccChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           72 T-FKENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        72 ~-~~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                      + -.....++++....      ....+++||++|.++.
T Consensus        70 ~~~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~  107 (313)
T PRK05564         70 KKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTE  107 (313)
T ss_pred             CCCCCHHHHHHHHHHHhcCcccCCceEEEEechhhcCH
Confidence            1 12234566655533      2567999999999944

>PRK06526 transposase; Provisional

Probab=98.81  E-value=3.4e-09  Score=85.95  Aligned_cols=64  Identities=23%  Similarity=0.406  Sum_probs=46.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC-------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE-------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.+++|+||||||||+++.+|+..+   |..+...++..+..       ...+...+.......+|+|||++..
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~  171 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYI  171 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccC
Confidence            4569999999999999999999876   66776665554321       1123344555567789999999976

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.81  E-value=1.9e-07  Score=85.07  Aligned_cols=90  Identities=19%  Similarity=0.246  Sum_probs=61.1

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENME   78 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~   78 (204)
                      |++++|.+.....+.+.+.....           ....++|+|++||||+++|++|.....   .+++.+|+..+....-
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~-----------~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~  392 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAK-----------SSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEAL  392 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhC-----------cCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHH
Confidence            56666666555555444443321           133499999999999999999988763   6899999988754222


Q ss_pred             HHHHHHh--------------cCCCeEEEEecCCccch
Q 041769           79 LRNMLIA--------------TKNKSILVVGDIDYLTL  102 (204)
Q Consensus        79 ~~~~~~~--------------~~~~~il~iDeid~~~~  102 (204)
                      ..+.|..              ...++.|||||++.++.
T Consensus       393 ~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~  430 (638)
T PRK11388        393 AEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYLSP  430 (638)
T ss_pred             HHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhCCH
Confidence            2233331              13568999999999933

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

Probab=98.80  E-value=1.1e-07  Score=79.98  Aligned_cols=64  Identities=23%  Similarity=0.319  Sum_probs=47.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHH------HHHHH--Hh----cC---CC---eEEEEecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENME------LRNML--IA----TK---NK---SILVVGDID   98 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~------~~~~~--~~----~~---~~---~il~iDeid   98 (204)
                      +.+++|.||||+|||++++.+|+.++.+++.+++.......+      +....  ..    ..   ..   +++++|||+
T Consensus        43 ~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEIn  122 (329)
T COG0714          43 GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEIN  122 (329)
T ss_pred             CCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEeccc
Confidence            566999999999999999999999999999999876433222      12111  00    01   12   399999999


Q ss_pred             cc
Q 041769           99 YL  100 (204)
Q Consensus        99 ~~  100 (204)
                      ..
T Consensus       123 ra  124 (329)
T COG0714         123 RA  124 (329)
T ss_pred             cC
Confidence            98

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.79  E-value=2.7e-07  Score=77.60  Aligned_cols=86  Identities=17%  Similarity=0.263  Sum_probs=57.6

Q ss_pred             cCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHH-
Q 041769            6 AMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRN-   81 (204)
Q Consensus         6 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~-   81 (204)
                      +|.+.....+.+.+.....           ....|+|+|++||||+++|++|-...   +.+++.+|++.+... .+.. 
T Consensus         2 iG~S~~m~~~~~~~~~~a~-----------~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~-~l~~~   69 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAP-----------LDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSEN-LLDSE   69 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChH-HHHHH
Confidence            4555555555555543321           13449999999999999999998766   368999999876432 2222 


Q ss_pred             HHH-----------------hcCCCeEEEEecCCccchh
Q 041769           82 MLI-----------------ATKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        82 ~~~-----------------~~~~~~il~iDeid~~~~~  103 (204)
                      +|.                 ....++.|||||++.++..
T Consensus        70 lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~  108 (329)
T TIGR02974        70 LFGHEAGAFTGAQKRHQGRFERADGGTLFLDELATASLL  108 (329)
T ss_pred             HhccccccccCcccccCCchhhCCCCEEEeCChHhCCHH
Confidence            221                 1235789999999999443

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

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

Probab=98.79  E-value=1.5e-08  Score=84.38  Aligned_cols=65  Identities=23%  Similarity=0.443  Sum_probs=51.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC------------------------CceEEeecCCccCh----HHHHHHHHhc----
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN------------------------FDVYDLELTTFKEN----MELRNMLIAT----   86 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~------------------------~~~~~~~~~~~~~~----~~~~~~~~~~----   86 (204)
                      .+||+||||+|||++|.++|+.+.                        ..++.+++++....    ..++++....    
T Consensus        26 alL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~~~  105 (325)
T COG0470          26 ALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSESP  105 (325)
T ss_pred             eeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhccCC
Confidence            599999999999999999999997                        68889999887652    3344443333    


Q ss_pred             --CCCeEEEEecCCccchh
Q 041769           87 --KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        87 --~~~~il~iDeid~~~~~  103 (204)
                        ....+++|||+|.++.+
T Consensus       106 ~~~~~kviiidead~mt~~  124 (325)
T COG0470         106 LEGGYKVVIIDEADKLTED  124 (325)
T ss_pred             CCCCceEEEeCcHHHHhHH
Confidence              24689999999999553

>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=98.78  E-value=2.3e-08  Score=76.17  Aligned_cols=87  Identities=17%  Similarity=0.188  Sum_probs=57.6

Q ss_pred             cCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHHHHHH
Q 041769            6 AMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENMELRNM   82 (204)
Q Consensus         6 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~~~~~   82 (204)
                      +|.+....++.+.+.....           .+..|+++|++||||+.+|++|-....   .+++.++++.+....--.++
T Consensus         2 iG~s~~m~~~~~~~~~~a~-----------~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~L   70 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAAS-----------SDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESEL   70 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTT-----------STS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHH
T ss_pred             EeCCHHHHHHHHHHHHHhC-----------CCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhh
Confidence            4555555565555554432           134599999999999999999999763   68999999987544323344


Q ss_pred             HHhc-----------------CCCeEEEEecCCccchh
Q 041769           83 LIAT-----------------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        83 ~~~~-----------------~~~~il~iDeid~~~~~  103 (204)
                      |...                 ..++.|+|||++.++..
T Consensus        71 FG~~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~  108 (168)
T PF00158_consen   71 FGHEKGAFTGARSDKKGLLEQANGGTLFLDEIEDLPPE  108 (168)
T ss_dssp             HEBCSSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-HH
T ss_pred             hccccccccccccccCCceeeccceEEeecchhhhHHH
Confidence            4321                 25789999999999543

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 ....

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=98.77  E-value=4.9e-09  Score=75.68  Aligned_cols=69  Identities=23%  Similarity=0.310  Sum_probs=40.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHH--HHh-------c---CCCeEEEEecCCcc---chh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNM--LIA-------T---KNKSILVVGDIDYL---TLH  103 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~--~~~-------~---~~~~il~iDeid~~---~~~  103 (204)
                      ++||+|+||+|||++++++|+.++..+..+++..-....++...  +..       .   -...++++||+...   +.+
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrappktQs   80 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPPKTQS   80 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-HHHHH
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCHHHHH
Confidence            48999999999999999999999999998887532222222100  000       0   12469999999998   445


Q ss_pred             hhhh
Q 041769          104 ILLR  107 (204)
Q Consensus       104 a~~r  107 (204)
                      +++.
T Consensus        81 AlLe   84 (131)
T PF07726_consen   81 ALLE   84 (131)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.77  E-value=1.4e-07  Score=83.79  Aligned_cols=90  Identities=17%  Similarity=0.282  Sum_probs=63.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      +|++++|.+.....+.+.+..+...           ...++++|++||||+.+|++|-...   +.+++.+|+..+.. .
T Consensus       210 ~f~~iiG~S~~m~~~~~~i~~~A~~-----------~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e-~  277 (526)
T TIGR02329       210 RLDDLLGASAPMEQVRALVRLYARS-----------DATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAE-S  277 (526)
T ss_pred             chhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCCh-h
Confidence            3677888877766666655544321           2349999999999999999998765   56899999987643 2


Q ss_pred             HHHH-HHH------------------hcCCCeEEEEecCCccch
Q 041769           78 ELRN-MLI------------------ATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        78 ~~~~-~~~------------------~~~~~~il~iDeid~~~~  102 (204)
                      .+.. +|.                  ....++.|||||++.+..
T Consensus       278 lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~  321 (526)
T TIGR02329       278 LLEAELFGYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPL  321 (526)
T ss_pred             HHHHHhcCCcccccccccccccccchhhcCCceEEecChHhCCH
Confidence            2222 222                  113467899999999943

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.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.77  E-value=2.2e-07  Score=82.72  Aligned_cols=90  Identities=14%  Similarity=0.203  Sum_probs=62.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHh-----------cCCceEEeec
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY-----------LNFDVYDLEL   70 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~-----------~~~~~~~~~~   70 (204)
                      |++++|.+...+.+.+.+..+...           ...++++|++||||+.+|++|-..           .+.+++.+|+
T Consensus       218 f~~iiG~S~~m~~~~~~i~~~A~s-----------~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inC  286 (538)
T PRK15424        218 LGDLLGQSPQMEQVRQTILLYARS-----------SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNC  286 (538)
T ss_pred             hhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeec
Confidence            667888877666665555543221           334999999999999999999887           3568999999


Q ss_pred             CCccChHHHHH-HHH------------------hcCCCeEEEEecCCccchh
Q 041769           71 TTFKENMELRN-MLI------------------ATKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        71 ~~~~~~~~~~~-~~~------------------~~~~~~il~iDeid~~~~~  103 (204)
                      +.+... .+.. +|.                  ....++.|||||++.+...
T Consensus       287 aal~e~-lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~  337 (538)
T PRK15424        287 GAIAES-LLEAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLP  337 (538)
T ss_pred             ccCChh-hHHHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHH
Confidence            887532 2222 221                  1235678999999999443

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.77  E-value=4.9e-08  Score=82.02  Aligned_cols=49  Identities=24%  Similarity=0.365  Sum_probs=36.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .|++++|++..+..+.-.+..             +...|+||+|+||+|||++++++++.++
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~llP   54 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALLP   54 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHCC
Confidence            477888888777765322110             1124699999999999999999999984

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.77  E-value=5e-07  Score=75.94  Aligned_cols=89  Identities=16%  Similarity=0.226  Sum_probs=63.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENME   78 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~   78 (204)
                      +++++|.+.....+.+.+.....           ....|+++|++||||+++|++|-....   .+++.+++..+.. ..
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~-----------~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~-~~   72 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-NL   72 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCH-HH
Confidence            57888888777777666665432           134499999999999999999987653   5899999988643 22


Q ss_pred             HHHHH-H-----------------hcCCCeEEEEecCCccch
Q 041769           79 LRNML-I-----------------ATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        79 ~~~~~-~-----------------~~~~~~il~iDeid~~~~  102 (204)
                      +...+ .                 ....++.|+|||++.+..
T Consensus        73 ~~~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~  114 (326)
T PRK11608         73 LDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM  114 (326)
T ss_pred             HHHHHccccccccCCcccccCCchhccCCCeEEeCChhhCCH
Confidence            32221 1                 123568899999999943

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.75  E-value=1.8e-08  Score=86.22  Aligned_cols=70  Identities=19%  Similarity=0.324  Sum_probs=51.9

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~   73 (204)
                      .++|+++.+..+...+...+........+. -..+.+++|+||||||||+++++||..++.+++.+++..+
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~   83 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   83 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeeccee
Confidence            478888888888776665544332211111 1235789999999999999999999999999999997644

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.

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.73  E-value=1.6e-08  Score=85.91  Aligned_cols=63  Identities=21%  Similarity=0.431  Sum_probs=50.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC----hHHHHHH----HHhc------CCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE----NMELRNM----LIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~----~~~~~~~----~~~~------~~~~il~iDeid~~  100 (204)
                      ..+||.||+|+|||.|++.||+.++.|+..+|+..+..    ..++..+    +..+      .+.+|+||||+|.+
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi  303 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKI  303 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhh
Confidence            35999999999999999999999999999999887742    1233333    3333      36799999999999

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.72  E-value=3.5e-07  Score=84.05  Aligned_cols=87  Identities=17%  Similarity=0.283  Sum_probs=59.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENME   78 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~   78 (204)
                      |++++|.+.....+.+.+.....           ....++++|++|||||++|++|....   +.+++.+++..+... .
T Consensus       375 ~~~liG~S~~~~~~~~~~~~~a~-----------~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~-~  442 (686)
T PRK15429        375 FGEIIGRSEAMYSVLKQVEMVAQ-----------SDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG-L  442 (686)
T ss_pred             ccceeecCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh-H
Confidence            56677777666666555554322           12359999999999999999998865   568999998876321 1


Q ss_pred             HH-------------------HHHHhcCCCeEEEEecCCccc
Q 041769           79 LR-------------------NMLIATKNKSILVVGDIDYLT  101 (204)
Q Consensus        79 ~~-------------------~~~~~~~~~~il~iDeid~~~  101 (204)
                      +.                   ..+ ....++.|||||++.+.
T Consensus       443 ~~~~lfg~~~~~~~g~~~~~~g~l-e~a~~GtL~Ldei~~L~  483 (686)
T PRK15429        443 LESDLFGHERGAFTGASAQRIGRF-ELADKSSLFLDEVGDMP  483 (686)
T ss_pred             hhhhhcCcccccccccccchhhHH-HhcCCCeEEEechhhCC
Confidence            11                   112 22356899999999983

>PRK08118 topology modulation protein; Reviewed

Probab=98.71  E-value=1.1e-07  Score=72.41  Aligned_cols=93  Identities=18%  Similarity=0.117  Sum_probs=63.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC------ccChHHHHHHHHhcCCCeEEEEecCCccchhhhhhccccc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT------FKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMD  112 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~il~iDeid~~~~~a~~r~~R~~  112 (204)
                      .++++||||+||||+++.|+..++.+++.++.--      .....+...++.......-.+||....-++...+  .++|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~~~~~~~~~~~~~~~wVidG~~~~~~~~~l--~~~d   80 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKEEQITVQNELVKEDEWIIDGNYGGTMDIRL--NAAD   80 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHHHHHHHHHHHhcCCCEEEeCCcchHHHHHH--HhCC
Confidence            3899999999999999999999999988877322      1223344444444322233678886554443222  3789


Q ss_pred             eeEecCCCCHHHHHHHHHHhh
Q 041769          113 MHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       113 ~~i~~~~p~~~~~~~i~~~~~  133 (204)
                      ..|.+..|...-...+..+.+
T Consensus        81 ~vi~Ld~p~~~~~~R~~~R~~  101 (167)
T PRK08118         81 TIIFLDIPRTICLYRAFKRRV  101 (167)
T ss_pred             EEEEEeCCHHHHHHHHHHHHH
Confidence            999999998877766666654

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.71  E-value=2.9e-06  Score=72.00  Aligned_cols=50  Identities=18%  Similarity=0.298  Sum_probs=36.1

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |++++|+......+...+.    ...        .+..++|+||+|+|||++|+.+|+.+..
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~----~gr--------l~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYR----EGK--------LHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             hhhccCcHHHHHHHHHHHH----cCC--------CCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            5677888766655543333    111        2456999999999999999999999844

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.71  E-value=3e-06  Score=72.22  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=37.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +|++++|++..++.+.+.+..    .        ..+.++||+||+|+||+++|.++|+.+
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~----~--------rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRS----G--------RLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             chhhccChHHHHHHHHHHHHc----C--------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            467888988777766544432    1        225569999999999999999999988

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.70  E-value=4.3e-07  Score=80.88  Aligned_cols=90  Identities=13%  Similarity=0.222  Sum_probs=61.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      +|++++|.+....++.+.+.....           ....++++|++||||+++|+++-...   ..+++.++++.+... 
T Consensus       202 ~f~~~ig~s~~~~~~~~~~~~~A~-----------~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~-  269 (520)
T PRK10820        202 AFSQIVAVSPKMRQVVEQARKLAM-----------LDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDD-  269 (520)
T ss_pred             cccceeECCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHH-
Confidence            477888887766666555543321           12349999999999999999986654   358899999886532 


Q ss_pred             HHH-HHHH-----------------hcCCCeEEEEecCCccch
Q 041769           78 ELR-NMLI-----------------ATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        78 ~~~-~~~~-----------------~~~~~~il~iDeid~~~~  102 (204)
                      .+. .+|.                 ....++.|+|||++.++.
T Consensus       270 ~~e~elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~  312 (520)
T PRK10820        270 VVESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSP  312 (520)
T ss_pred             HHHHHhcCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCH
Confidence            222 2222                 113467899999999943

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.70  E-value=2.9e-07  Score=77.72  Aligned_cols=49  Identities=24%  Similarity=0.366  Sum_probs=37.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .|+.++|+++.|..+...+..             +.-.|++|.|++|||||+++++++..+.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            378889998887776444331             2235799999999999999999988873

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.70  E-value=3.1e-08  Score=83.41  Aligned_cols=61  Identities=25%  Similarity=0.384  Sum_probs=47.6

Q ss_pred             cc-cccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCceeEEECCCCCcHHHHHHHHHHhcCC-------ceEEeec
Q 041769            2 FD-TLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKHSYFLYGPPGTGKSSLIAAMTNYLNF-------DVYDLEL   70 (204)
Q Consensus         2 ~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~g~ll~Gp~GtGKT~la~~la~~~~~-------~~~~~~~   70 (204)
                      |+ +++|+++.+.++.+.+.....        |. ..++.++|+||||+||||+|++|++.++.       +++.+..
T Consensus        49 F~~~~~G~~~~i~~lv~~l~~~a~--------g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       49 FDHDFFGMEEAIERFVNYFKSAAQ--------GLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cchhccCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            45 899999998888776665432        22 22456899999999999999999999976       7777765

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.68  E-value=6.5e-07  Score=79.60  Aligned_cols=88  Identities=16%  Similarity=0.198  Sum_probs=59.9

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMEL   79 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~   79 (204)
                      .+++|.+.....+.+.+.....           .+..++|+|++||||+++|++|....   +.+++.+|+..+... .+
T Consensus       187 ~~iig~s~~~~~~~~~i~~~a~-----------~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~-~~  254 (509)
T PRK05022        187 GEMIGQSPAMQQLKKEIEVVAA-----------SDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPES-LA  254 (509)
T ss_pred             CceeecCHHHHHHHHHHHHHhC-----------CCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChH-HH
Confidence            4566666665555555554321           13459999999999999999999876   468999999887432 22


Q ss_pred             H-HHHH-----------------hcCCCeEEEEecCCccch
Q 041769           80 R-NMLI-----------------ATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        80 ~-~~~~-----------------~~~~~~il~iDeid~~~~  102 (204)
                      . ++|.                 ....++.|||||++.+..
T Consensus       255 e~~lfG~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~  295 (509)
T PRK05022        255 ESELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPL  295 (509)
T ss_pred             HHHhcCccccccCCCcccCCcchhhcCCCEEEecChhhCCH
Confidence            2 2222                 123567899999999943

>PHA00729 NTP-binding motif containing protein

Probab=98.68  E-value=1.6e-07  Score=74.41  Aligned_cols=88  Identities=14%  Similarity=0.284  Sum_probs=53.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce----------------EEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc--
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV----------------YDLELTTFKENMELRNMLIATKNKSILVVGDIDYL--  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~--  100 (204)
                      .++++|+|||||||+|.+|+..++..+                +.++...+.  ..+...+.......+|+|||+..-  
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll--~~L~~a~~~~~~~dlLIIDd~G~~~~   96 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDAL--EKIQDAIDNDYRIPLIIFDDAGIWLS   96 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHH--HHHHHHHhcCCCCCEEEEeCCchhhc
Confidence            599999999999999999999875322                222222111  112222222223468999995443  


Q ss_pred             -------------chhhhhhccccceeEecCCCCHHHHHHHHH
Q 041769          101 -------------TLHILLRSSCMDMHIHMSYCTPFRFKMLAS  130 (204)
Q Consensus       101 -------------~~~a~~r~~R~~~~i~~~~p~~~~~~~i~~  130 (204)
                                   .++.++|+ |.+. +.+..+++......++
T Consensus        97 ~~~wh~~~~~~yf~L~~aLrS-R~~l-~il~~ls~edL~~~Lr  137 (226)
T PHA00729         97 KYVWYEDYMKTFYKIYALIRT-RVSA-VIFTTPSPEDLAFYLR  137 (226)
T ss_pred             ccchhhhccchHHHHHHHHHh-hCcE-EEEecCCHHHHHHHHH
Confidence                         24455554 6666 6666677777655443

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

Probab=98.68  E-value=3.4e-08  Score=84.65  Aligned_cols=70  Identities=17%  Similarity=0.294  Sum_probs=51.6

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~   73 (204)
                      .++|+++.+..+...+...+...........+ .+.+++|+||||+|||++|++||+.++.+++.++++.+
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f   86 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   86 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhh
Confidence            47899988888877776543322111111111 24679999999999999999999999999999998754

>PRK09183 transposase/IS protein; Provisional

Probab=98.64  E-value=4.3e-08  Score=79.76  Aligned_cols=64  Identities=22%  Similarity=0.335  Sum_probs=45.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh-------HHHHHHHHh-cCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN-------MELRNMLIA-TKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~-------~~~~~~~~~-~~~~~il~iDeid~~  100 (204)
                      +.+++|+||||||||+++.+++..+   |..+.+++...+...       ..+...+.. ...+.+++|||++..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~~  176 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYL  176 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEcccccC
Confidence            4569999999999999999998764   777777776544211       123344443 456779999999875

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.63  E-value=1.7e-06  Score=72.88  Aligned_cols=89  Identities=19%  Similarity=0.310  Sum_probs=54.9

Q ss_pred             cccccC-ChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            2 FDTLAM-DSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         2 ~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      |+++.| ++.+.+.+.+.+    ..+        ..+..+|||||+|+||+++|+++|+.+-.                 
T Consensus         4 ~~~i~~~q~~~~~~L~~~~----~~~--------~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~   71 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSI----AKN--------RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKR   71 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHH----HcC--------CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHH
Confidence            566777 554544443332    221        22556899999999999999999998732                 


Q ss_pred             -------ceEEeecCCc-cChHHHHHHHHhc------CCCeEEEEecCCccch
Q 041769           64 -------DVYDLELTTF-KENMELRNMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        64 -------~~~~~~~~~~-~~~~~~~~~~~~~------~~~~il~iDeid~~~~  102 (204)
                             ++..+...+- .....++++....      ....|++||++|.++.
T Consensus        72 ~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~  124 (329)
T PRK08058         72 IDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTA  124 (329)
T ss_pred             HhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCH
Confidence                   2333332211 1224555554433      2457999999999944

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.62  E-value=5.2e-07  Score=69.75  Aligned_cols=66  Identities=23%  Similarity=0.388  Sum_probs=45.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC------------------------ceEEeecCCc-cChHHHHHHHHhc-----
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF------------------------DVYDLELTTF-KENMELRNMLIAT-----   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~------------------------~~~~~~~~~~-~~~~~~~~~~~~~-----   86 (204)
                      +..+|||||+|+|||++++.+++.+..                        ++..++...- .....++.++...     
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence            456999999999999999999999743                        1333333221 2234555444443     


Q ss_pred             -CCCeEEEEecCCccch
Q 041769           87 -KNKSILVVGDIDYLTL  102 (204)
Q Consensus        87 -~~~~il~iDeid~~~~  102 (204)
                       ....+++|||+|.++.
T Consensus        94 ~~~~kviiide~~~l~~  110 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNE  110 (188)
T ss_pred             cCCeEEEEEechhhhCH
Confidence             2567999999999944

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.62  E-value=1.2e-06  Score=76.08  Aligned_cols=90  Identities=18%  Similarity=0.190  Sum_probs=60.4

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHHH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENMEL   79 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~~   79 (204)
                      ..++|.....+++.+.+.....           ....||++|++||||..+|++|-+...   .+++.+|+..+...---
T Consensus       141 ~~liG~S~am~~l~~~i~kvA~-----------s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~E  209 (464)
T COG2204         141 GELVGESPAMQQLRRLIAKVAP-----------SDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLE  209 (464)
T ss_pred             CCceecCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHH
Confidence            3455665555555444443321           134499999999999999999999884   59999999887543222


Q ss_pred             HHHHHh-----------------cCCCeEEEEecCCccchh
Q 041769           80 RNMLIA-----------------TKNKSILVVGDIDYLTLH  103 (204)
Q Consensus        80 ~~~~~~-----------------~~~~~il~iDeid~~~~~  103 (204)
                      .++|.-                 ...++.||+|||..+.+.
T Consensus       210 SELFGhekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~  250 (464)
T COG2204         210 SELFGHEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLE  250 (464)
T ss_pred             HHhhcccccCcCCcccccCcceeEcCCceEEeeccccCCHH
Confidence            223331                 135789999999999443

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.60  E-value=1.2e-06  Score=76.65  Aligned_cols=90  Identities=22%  Similarity=0.307  Sum_probs=63.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      +|++++|......++.+.+....           +....+|++|.+||||..+|++|-+..   +.+|+.+|++.+-.. 
T Consensus       243 ~f~~Iig~S~~m~~~~~~akr~A-----------~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~-  310 (560)
T COG3829         243 TFDDIIGESPAMLRVLELAKRIA-----------KTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPET-  310 (560)
T ss_pred             chhhhccCCHHHHHHHHHHHhhc-----------CCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHH-
Confidence            47788888766666655554332           223459999999999999999999887   569999999876321 


Q ss_pred             HHHHHHHh-------------------cCCCeEEEEecCCccch
Q 041769           78 ELRNMLIA-------------------TKNKSILVVGDIDYLTL  102 (204)
Q Consensus        78 ~~~~~~~~-------------------~~~~~il~iDeid~~~~  102 (204)
                      -+...+..                   .+.++-||+|||..+.+
T Consensus       311 LlESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl  354 (560)
T COG3829         311 LLESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPL  354 (560)
T ss_pred             HHHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccCCH
Confidence            11212222                   13568999999999944

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.59  E-value=3.1e-08  Score=69.85  Aligned_cols=61  Identities=18%  Similarity=0.320  Sum_probs=39.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      |.||||||+|||++++.|+..+...+..-....+-....-.+.+.....+.++++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~~w~gY~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDKFWDGYQGQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccchhhccCCCcEEEEeecCcc
Confidence            5799999999999999999887433211111111001111244566677889999999875

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

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

Probab=98.56  E-value=1.6e-07  Score=80.98  Aligned_cols=47  Identities=30%  Similarity=0.469  Sum_probs=34.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +|.||.|+...|..+.-..               ..+.+++|+||||||||.+|+-+...++
T Consensus       177 D~~DV~GQ~~AKrAleiAA---------------AGgHnLl~~GpPGtGKTmla~Rl~~lLP  223 (490)
T COG0606         177 DFKDVKGQEQAKRALEIAA---------------AGGHNLLLVGPPGTGKTMLASRLPGLLP  223 (490)
T ss_pred             chhhhcCcHHHHHHHHHHH---------------hcCCcEEEecCCCCchHHhhhhhcccCC
Confidence            3667777766665551111               2246699999999999999999998884

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.56  E-value=3.7e-07  Score=76.86  Aligned_cols=47  Identities=23%  Similarity=0.365  Sum_probs=36.3

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |..++|+++.+..+.-.+..             +...|+++.|+||+|||++++++++.+
T Consensus         3 f~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            78889998887776333221             123569999999999999999999887

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.55  E-value=6.3e-08  Score=87.42  Aligned_cols=59  Identities=27%  Similarity=0.340  Sum_probs=40.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++++|.+++.....+...+....        .+...+..++|+||||+|||++++++|+.++..+..
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            36778888766666544443221        112223448999999999999999999999866533

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

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

Probab=98.53  E-value=1.1e-07  Score=68.72  Aligned_cols=37  Identities=30%  Similarity=0.543  Sum_probs=28.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc--------CCceEEeecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL--------NFDVYDLELTTFK   74 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~--------~~~~~~~~~~~~~   74 (204)
                      ..++++||||+|||++++.+++.+        ..+++.+++....
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            458999999999999999999998        6777777765443

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.52  E-value=4.9e-07  Score=83.70  Aligned_cols=92  Identities=17%  Similarity=0.318  Sum_probs=63.0

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc----
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK----   74 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~----   74 (204)
                      +.|+||++....|.+.+.....      .++-+ +...++|.||.|+|||-+|+++|..+   ...++.+|++.++    
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~------gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evsk  635 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRA------GLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSK  635 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhc------ccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhh
Confidence            3567777766666555553321      12222 23459999999999999999999998   5688999998632    


Q ss_pred             ---------ChHHHHHHHHhc--CCCeEEEEecCCcc
Q 041769           75 ---------ENMELRNMLIAT--KNKSILVVGDIDYL  100 (204)
Q Consensus        75 ---------~~~~~~~~~~~~--~~~~il~iDeid~~  100 (204)
                               +......+....  .+.+||+|||||..
T Consensus       636 ligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  636 LIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             ccCCCcccccchhHHHHHHHHhcCCceEEEEechhhc
Confidence                     222233333333  46799999999998

>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=4.3e-07  Score=76.45  Aligned_cols=76  Identities=18%  Similarity=0.290  Sum_probs=48.7

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC--CceEEeecCCccCh----
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN--FDVYDLELTTFKEN----   76 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~--~~~~~~~~~~~~~~----   76 (204)
                      +-++|+.+.++.+ ..+...+..++       -.++++||.||||||||.+|-++|+++|  .|++.++.+.+-+.    
T Consensus        24 ~GlVGQ~~AReAa-giiv~mIk~~K-------~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~kK   95 (398)
T PF06068_consen   24 DGLVGQEKAREAA-GIIVDMIKEGK-------IAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEVKK   95 (398)
T ss_dssp             TTEES-HHHHHHH-HHHHHHHHTT---------TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC-H
T ss_pred             ccccChHHHHHHH-HHHHHHHhccc-------ccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeecccCc
Confidence            4467887777765 33333333322       2368899999999999999999999997  68888888886322    


Q ss_pred             -HHHHHHHHhc
Q 041769           77 -MELRNMLIAT   86 (204)
Q Consensus        77 -~~~~~~~~~~   86 (204)
                       ..+.+.|..+
T Consensus        96 TE~L~qa~Rra  106 (398)
T PF06068_consen   96 TEALTQAFRRA  106 (398)
T ss_dssp             HHHHHHHHHCS
T ss_pred             hHHHHHHHHHh
Confidence             2345555554

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.

>PF13173 AAA_14: AAA domain

Probab=98.51  E-value=2.6e-07  Score=67.13  Aligned_cols=62  Identities=21%  Similarity=0.447  Sum_probs=46.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC--CceEEeecCCccChH----HHHHHHHhc--CCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN--FDVYDLELTTFKENM----ELRNMLIAT--KNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~--~~~~~~~~~~~~~~~----~~~~~~~~~--~~~~il~iDeid~~  100 (204)
                      .++++||.|+||||+++.+++.+.  .+++++++.+.....    .+.+.+...  ....+|+|||++.+
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~   73 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYL   73 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhh
Confidence            488999999999999999999886  888888887754321    122333332  35789999999987

>PRK07261 topology modulation protein; Provisional

Probab=98.51  E-value=7.6e-07  Score=68.01  Aligned_cols=91  Identities=15%  Similarity=0.198  Sum_probs=61.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------ChHHHHHHHHhc-CCCeEEEEecCCccch-hhhhhcccc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------ENMELRNMLIAT-KNKSILVVGDIDYLTL-HILLRSSCM  111 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------~~~~~~~~~~~~-~~~~il~iDeid~~~~-~a~~r~~R~  111 (204)
                      ++++|+||+||||+++.|++.++.+++.++.-...      ...++...+... .... .+||....... ...+  .++
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-wIidg~~~~~~~~~~l--~~a   79 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKHD-WIIDGNYSWCLYEERM--QEA   79 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHHhCCC-EEEcCcchhhhHHHHH--HHC
Confidence            78999999999999999999998887776533221      122333333333 3333 77888754322 2222  378


Q ss_pred             ceeEecCCCCHHHHHHHHHHhh
Q 041769          112 DMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       112 ~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                      |..+.+..|.......++.+..
T Consensus        80 d~vI~Ld~p~~~~~~R~lkR~~  101 (171)
T PRK07261         80 DQIIFLNFSRFNCLYRAFKRYL  101 (171)
T ss_pred             CEEEEEcCCHHHHHHHHHHHHH
Confidence            9999999998877777766654

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

Probab=98.47  E-value=4.7e-07  Score=78.42  Aligned_cols=26  Identities=35%  Similarity=0.648  Sum_probs=23.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.+++|+||||||||++|+.+|..+.
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~  219 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLT  219 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence            45699999999999999999999884

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.47  E-value=6.1e-07  Score=78.34  Aligned_cols=27  Identities=33%  Similarity=0.507  Sum_probs=23.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.+++|+||||||||++|++++...+.
T Consensus        39 g~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         39 GESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             CCCEEEECCCChhHHHHHHHHHHHhcc
Confidence            456999999999999999999998753

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.47  E-value=2.1e-06  Score=73.37  Aligned_cols=88  Identities=18%  Similarity=0.281  Sum_probs=60.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCccChH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTFKENM   77 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~~   77 (204)
                      +++++|.+..-+.+.+.+..       +.    +....+|++|++||||+.+|+.|....    ..+++.+|++.+..+.
T Consensus        77 ~~~LIG~~~~~~~~~eqik~-------~a----p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~  145 (403)
T COG1221          77 LDDLIGESPSLQELREQIKA-------YA----PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENL  145 (403)
T ss_pred             hhhhhccCHHHHHHHHHHHh-------hC----CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCH
Confidence            34556665554554444443       11    223459999999999999999998554    4589999999987665


Q ss_pred             HHHHHHHhc-----------------CCCeEEEEecCCcc
Q 041769           78 ELRNMLIAT-----------------KNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~~~~~~~~~-----------------~~~~il~iDeid~~  100 (204)
                      ...++|.-.                 ..++.||+|||..+
T Consensus       146 ~~~eLFG~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~L  185 (403)
T COG1221         146 QEAELFGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRL  185 (403)
T ss_pred             HHHHHhccccceeecccCCcCchheecCCCEEehhhhhhC
Confidence            554444321                 25789999999999

>PRK04132 replication factor C small subunit; Provisional

Probab=98.47  E-value=1.4e-06  Score=80.97  Aligned_cols=64  Identities=17%  Similarity=0.223  Sum_probs=51.7

Q ss_pred             eEEEC--CCCCcHHHHHHHHHHhc-----CCceEEeecCCccChHHHHHHHHhcC--------CCeEEEEecCCccchh
Q 041769           40 YFLYG--PPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKENMELRNMLIATK--------NKSILVVGDIDYLTLH  103 (204)
Q Consensus        40 ~ll~G--p~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~il~iDeid~~~~~  103 (204)
                      -+..|  |++.||||+|+++|+.+     +.+++.+|+++..+...+++++....        +..|++|||+|.++.+
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~  645 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQD  645 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHH
Confidence            45668  99999999999999998     56899999999777777777765431        2369999999999543

>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=98.46  E-value=1.6e-07  Score=67.15  Aligned_cols=90  Identities=18%  Similarity=0.186  Sum_probs=54.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec--CCc------cCh--------HHHHHHHHhc---CCCeEEEEecCCcc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL--TTF------KEN--------MELRNMLIAT---KNKSILVVGDIDYL  100 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~--~~~------~~~--------~~~~~~~~~~---~~~~il~iDeid~~  100 (204)
                      +++.|||||||||+++.||+.+|..++.++.  ...      ...        ..+...+...   .....+++|.....
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ii~g~~~~   81 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDDLIREPGWIERDDDEREYIDADIDLLDDILEQLQNKPDNDNWIIDGSYES   81 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHHHHCCGTHCHGCTTCCHHHHHHHHHHHHHHHHHHETTT--EEEEECCSCH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecceEEeccccccCcchhhHHHHHHHHHHHHHHhhhccCCCCeEEEeCCCcc
Confidence            7899999999999999999999988877665  110      010        1122333333   24567888884431


Q ss_pred             chhhhhhccccceeEecCCCCHHHHHHHHHH
Q 041769          101 TLHILLRSSCMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus       101 ~~~a~~r~~R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                       ...+ +...++..+.+..|....+..+..+
T Consensus        82 -~~~~-~~~~~~~~i~l~~~~~~~~~~~~~R  110 (121)
T PF13207_consen   82 -EMEI-RLPEFDHVIYLDAPDEECRERRLKR  110 (121)
T ss_dssp             -CCHS-CCHHGGCEEEEEEEEHHHHHHHHHH
T ss_pred             -chhh-hhhcCCEEEEEECCCHHHHHHHHHH
Confidence             1122 2224556677777776555444444

...

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.44  E-value=1.5e-06  Score=79.17  Aligned_cols=47  Identities=17%  Similarity=0.277  Sum_probs=34.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |..|+|++..+..+.-.+.    .         +...|++|+|++|||||++|++|+..+
T Consensus         3 f~~ivGq~~~~~al~~~av----~---------~~~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         3 FTAIVGQEDLKLALLLNAV----D---------PRIGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             cchhcChHHHHHHHHHHhh----C---------CCCCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            7889998877655422111    1         112469999999999999999999988

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=98.42  E-value=1.6e-05  Score=64.65  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ++++||+|+|||++++.+++.+.
T Consensus        46 ~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        46 ILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEcCCCCCHHHHHHHHHHhcC
Confidence            78999999999999999999885

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.42  E-value=1.5e-05  Score=70.00  Aligned_cols=65  Identities=17%  Similarity=0.274  Sum_probs=47.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHHHHH-HHHh-----------------cCCCeEEEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENMELRN-MLIA-----------------TKNKSILVVG   95 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~~~~-~~~~-----------------~~~~~il~iD   95 (204)
                      ...+++.|++|||||++|+++.....   .+++.++++.+... .+.. +|..                 ...++.+|||
T Consensus       161 ~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~-~~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~  239 (469)
T PRK10923        161 SISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKD-LIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLD  239 (469)
T ss_pred             CCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHH-HHHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEe
Confidence            34599999999999999999999863   58999999887432 2222 2221                 1246789999


Q ss_pred             cCCccch
Q 041769           96 DIDYLTL  102 (204)
Q Consensus        96 eid~~~~  102 (204)
                      |++.++.
T Consensus       240 ~i~~l~~  246 (469)
T PRK10923        240 EIGDMPL  246 (469)
T ss_pred             ccccCCH
Confidence            9998844

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.42  E-value=1e-05  Score=68.02  Aligned_cols=66  Identities=21%  Similarity=0.381  Sum_probs=46.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC------------------------ceEEeecCC---ccChHHHHHHHHhc---
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF------------------------DVYDLELTT---FKENMELRNMLIAT---   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~------------------------~~~~~~~~~---~~~~~~~~~~~~~~---   86 (204)
                      +.++||+||+|+|||++|+.+|+.+.+                        +++.+....   ......++++....   
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            456999999999999999999999843                        344443321   12335666665544   


Q ss_pred             ---CCCeEEEEecCCccch
Q 041769           87 ---KNKSILVVGDIDYLTL  102 (204)
Q Consensus        87 ---~~~~il~iDeid~~~~  102 (204)
                         ....|++||++|.++.
T Consensus       102 ~~~~~~kv~iI~~a~~m~~  120 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAMNR  120 (328)
T ss_pred             cccCCCeEEEECChhhCCH
Confidence               2467899999999944

>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=98.40  E-value=3.5e-06  Score=63.78  Aligned_cols=71  Identities=23%  Similarity=0.354  Sum_probs=50.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC-----------------------CceEEeecCCc---cChHHHHHHHHhcC---
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN-----------------------FDVYDLELTTF---KENMELRNMLIATK---   87 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~-----------------------~~~~~~~~~~~---~~~~~~~~~~~~~~---   87 (204)
                      +..+||+||+|+||+++|.++|+.+-                       .+++.++....   .....++++.....   
T Consensus        19 ~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~   98 (162)
T PF13177_consen   19 PHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSP   98 (162)
T ss_dssp             -SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS-
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHHH
Confidence            56699999999999999999999882                       24555555443   24466666666552   


Q ss_pred             ---CCeEEEEecCCccchh---hhhh
Q 041769           88 ---NKSILVVGDIDYLTLH---ILLR  107 (204)
Q Consensus        88 ---~~~il~iDeid~~~~~---a~~r  107 (204)
                         ...+++||++|.++..   ++++
T Consensus        99 ~~~~~KviiI~~ad~l~~~a~NaLLK  124 (162)
T PF13177_consen   99 SEGKYKVIIIDEADKLTEEAQNALLK  124 (162)
T ss_dssp             TTSSSEEEEEETGGGS-HHHHHHHHH
T ss_pred             hcCCceEEEeehHhhhhHHHHHHHHH
Confidence               5679999999999543   6665

...

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.40  E-value=3.8e-07  Score=67.13  Aligned_cols=79  Identities=25%  Similarity=0.343  Sum_probs=50.3

Q ss_pred             CChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC---ceEEeecCCccChHHHHHHH
Q 041769            7 MDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF---DVYDLELTTFKENMELRNML   83 (204)
Q Consensus         7 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~---~~~~~~~~~~~~~~~~~~~~   83 (204)
                      |.....+++.+.+.....           ....++++|++||||+++|++|....+.   +++.+++....     .+.+
T Consensus         2 G~S~~~~~l~~~l~~~a~-----------~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----~~~l   65 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAK-----------SSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----AELL   65 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHC-----------SSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----HHHH
T ss_pred             CCCHHHHHHHHHHHHHhC-----------CCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----HHHH
Confidence            444455555555554432           1344999999999999999999998754   33444444322     3344


Q ss_pred             HhcCCCeEEEEecCCccch
Q 041769           84 IATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        84 ~~~~~~~il~iDeid~~~~  102 (204)
                      ..+ .++.|+|+|+|.++.
T Consensus        66 ~~a-~~gtL~l~~i~~L~~   83 (138)
T PF14532_consen   66 EQA-KGGTLYLKNIDRLSP   83 (138)
T ss_dssp             HHC-TTSEEEEECGCCS-H
T ss_pred             HHc-CCCEEEECChHHCCH
Confidence            444 778899999999943

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.38  E-value=2.1e-05  Score=65.77  Aligned_cols=49  Identities=16%  Similarity=0.322  Sum_probs=38.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .|++++|++.+++.+...+..    .        ..+.++||+||+|+||+++|.++|+.+
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~----~--------rl~ha~Lf~G~~G~Gk~~~A~~~a~~l   50 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ----N--------RIAPAYLFAGPEGVGRKLAALCFIEGL   50 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh----C--------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            488999998887776555431    1        124569999999999999999999987

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.36  E-value=1.3e-05  Score=70.11  Aligned_cols=65  Identities=18%  Similarity=0.264  Sum_probs=47.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHh-----------------cCCCeEEEEecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIA-----------------TKNKSILVVGDI   97 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~il~iDei   97 (204)
                      ..++++|++||||+++|+++....   +.+++.+++..+....--...|..                 ...++.|||||+
T Consensus       167 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld~i  246 (457)
T PRK11361        167 ASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEI  246 (457)
T ss_pred             cEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEech
Confidence            459999999999999999998765   468999998876432211222221                 124689999999


Q ss_pred             Cccch
Q 041769           98 DYLTL  102 (204)
Q Consensus        98 d~~~~  102 (204)
                      +.+..
T Consensus       247 ~~l~~  251 (457)
T PRK11361        247 GEMPL  251 (457)
T ss_pred             hhCCH
Confidence            99933

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.36  E-value=5.4e-07  Score=79.97  Aligned_cols=60  Identities=23%  Similarity=0.393  Sum_probs=44.2

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-CceEEe
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-FDVYDL   68 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-~~~~~~   68 (204)
                      |++++|.+++++++.+.+......      ++. ...-++|+||||+|||+|+++|++.+. .+++.+
T Consensus        75 F~d~yGlee~ieriv~~l~~Aa~g------l~~-~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~  135 (644)
T PRK15455         75 FEEFYGMEEAIEQIVSYFRHAAQG------LEE-KKQILYLLGPVGGGKSSLAERLKSLMERVPIYVL  135 (644)
T ss_pred             hhcccCcHHHHHHHHHHHHHHHHh------cCC-CCceEEEecCCCCCchHHHHHHHHHHHhCcceee
Confidence            788999999999987776543321      111 234588999999999999999999883 345544

>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=98.34  E-value=3e-06  Score=69.48  Aligned_cols=64  Identities=27%  Similarity=0.483  Sum_probs=42.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc---eEEeecCCccChHHHHHHHHhc-------------CCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD---VYDLELTTFKENMELRNMLIAT-------------KNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~---~~~~~~~~~~~~~~~~~~~~~~-------------~~~~il~iDeid~~  100 (204)
                      ++.++|+||+|||||++++..-+.+...   +..++++...+...+.++++..             .+..++||||+..-
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fiDDlN~p  112 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFIDDLNMP  112 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSSEEEEEEETTT-S
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEecccCCC
Confidence            5669999999999999998887766433   3445665544444444333322             14579999999987

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

Probab=98.34  E-value=6.3e-07  Score=64.56  Aligned_cols=53  Identities=13%  Similarity=0.128  Sum_probs=40.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++|.|+.-+.+.+.+.+..++..+.      -..|--+.|+|+||||||.+++.||+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~------p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPN------PRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCC------CCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            3678888888888888887765431      1123336699999999999999999985

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

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

Probab=98.34  E-value=1.7e-05  Score=69.52  Aligned_cols=63  Identities=30%  Similarity=0.467  Sum_probs=49.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee-cCC---ccC---hHHHHHHHHhcC--CCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE-LTT---FKE---NMELRNMLIATK--NKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~-~~~---~~~---~~~~~~~~~~~~--~~~il~iDeid~~  100 (204)
                      ..+||+||||+|||+||..+|...+.|++.+- +.+   +..   ...+.++|..+.  .-+||++|+++.+
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErL  610 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERL  610 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhh
Confidence            45999999999999999999999999998753 222   222   245677777763  5689999999998

>PHA02624 large T antigen; Provisional

Probab=98.32  E-value=3.2e-06  Score=75.40  Aligned_cols=62  Identities=21%  Similarity=0.314  Sum_probs=42.6

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDID   98 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid   98 (204)
                      |+|..+.++|+||||||||+|+.+|++.++-.+..++.+.-...-.+    +-+....+.+|||+-
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~ks~FwL----~pl~D~~~~l~dD~t  488 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLNFEL----GCAIDQFMVVFEDVK  488 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcchhHHHh----hhhhhceEEEeeecc
Confidence            56777889999999999999999999999666666764332111111    112234567777774

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.31  E-value=6.9e-07  Score=71.60  Aligned_cols=114  Identities=15%  Similarity=0.217  Sum_probs=70.8

Q ss_pred             HHhHHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           23 VKRKEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        23 ~~~~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.++..+++.++....|  +.|.||+||||||+++.|.+....+                        .+-|+||+-+..
T Consensus        11 y~~~~av~~v~l~I~~gef~vliGpSGsGKTTtLkMINrLiept------------------------~G~I~i~g~~i~   66 (309)
T COG1125          11 YGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRLIEPT------------------------SGEILIDGEDIS   66 (309)
T ss_pred             cCCceeeeeeeEEecCCeEEEEECCCCCcHHHHHHHHhcccCCC------------------------CceEEECCeecc
Confidence            34555666666666555  7799999999999999999855332                        234556655554


Q ss_pred             chh--hhhhc-c-ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHH
Q 041769          101 TLH--ILLRS-S-CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVE  160 (204)
Q Consensus       101 ~~~--a~~r~-~-R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~  160 (204)
                      +.+  .+.|. | -+..+-.||--+-.+--.+.-...+.....+..++.+++...++.|.+...
T Consensus        67 ~~d~~~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~  130 (309)
T COG1125          67 DLDPVELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYAD  130 (309)
T ss_pred             cCCHHHHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhh
Confidence            433  23331 1 122223444445455444555566666777778888898888888765443

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

Probab=98.31  E-value=1e-06  Score=72.52  Aligned_cols=70  Identities=26%  Similarity=0.416  Sum_probs=47.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc------eEEeecCCccChHHHH---HHHHhc---------CCCeEEEEecCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD------VYDLELTTFKENMELR---NMLIAT---------KNKSILVVGDIDY   99 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~------~~~~~~~~~~~~~~~~---~~~~~~---------~~~~il~iDeid~   99 (204)
                      .+.|||||||+|||+.+.+.|+.+..+      +..+++++-.+..-.+   ..|...         ....++++||+|.
T Consensus        63 Ph~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADa  142 (360)
T KOG0990|consen   63 PHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADA  142 (360)
T ss_pred             CcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhH
Confidence            379999999999999999999988442      3335555543332222   122222         2567999999999


Q ss_pred             cchh---hhhh
Q 041769          100 LTLH---ILLR  107 (204)
Q Consensus       100 ~~~~---a~~r  107 (204)
                      +|.+   |+.|
T Consensus       143 MT~~AQnALRR  153 (360)
T KOG0990|consen  143 MTRDAQNALRR  153 (360)
T ss_pred             hhHHHHHHHHH
Confidence            9776   6666

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.31  E-value=8.1e-07  Score=78.79  Aligned_cols=58  Identities=28%  Similarity=0.462  Sum_probs=40.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|....+..+++..++.....        +....+-++|+|||||||||++++||+++|..+...
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew   76 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEW   76 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEe
Confidence            4555555555555555543321        222234588999999999999999999999888775

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.29  E-value=1.5e-05  Score=69.33  Aligned_cols=91  Identities=19%  Similarity=0.299  Sum_probs=63.5

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh--
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN--   76 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~--   76 (204)
                      +..++|.+....++++.+......           ...||+.|.+||||..+|++|-+..   ..+++.+|++.+-..  
T Consensus       222 ~~~iIG~S~am~~ll~~i~~VA~S-----------d~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLl  290 (550)
T COG3604         222 VGGIIGRSPAMRQLLKEIEVVAKS-----------DSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLL  290 (550)
T ss_pred             cccceecCHHHHHHHHHHHHHhcC-----------CCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHH
Confidence            346777777777776666544321           2349999999999999999999987   469999999887432  


Q ss_pred             -HHH----HHHHHhc----------CCCeEEEEecCCccchh
Q 041769           77 -MEL----RNMLIAT----------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        77 -~~~----~~~~~~~----------~~~~il~iDeid~~~~~  103 (204)
                       +++    +..|..+          ..++-||+|||..+.++
T Consensus       291 ESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~  332 (550)
T COG3604         291 ESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELPLA  332 (550)
T ss_pred             HHHHhcccccccccchhccCcceeecCCCeEechhhccCCHH
Confidence             111    1111111          36789999999999554

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

Probab=98.29  E-value=1.3e-06  Score=72.94  Aligned_cols=39  Identities=23%  Similarity=0.421  Sum_probs=33.6

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcC--CceEEeecCCc
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLN--FDVYDLELTTF   73 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~--~~~~~~~~~~~   73 (204)
                      -.++|+|+.||||||||.+|-++|+++|  .||+.++.+.+
T Consensus        63 ~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEi  103 (450)
T COG1224          63 MAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI  103 (450)
T ss_pred             ccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeecccee
Confidence            3478899999999999999999999997  47777777765

>PRK06217 hypothetical protein; Validated

Probab=98.28  E-value=3.5e-06  Score=64.94  Aligned_cols=91  Identities=18%  Similarity=0.186  Sum_probs=56.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc----------Ch-HHHHHHHHhcCCCeEEEEecCCccchhhhhhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK----------EN-MELRNMLIATKNKSILVVGDIDYLTLHILLRS  108 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~----------~~-~~~~~~~~~~~~~~il~iDeid~~~~~a~~r~  108 (204)
                      |+|.|+||+||||+++.|++.++.+++.+|.-...          .. .....+........-++||..-......+ . 
T Consensus         4 I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~G~~~~~~~~~-~-   81 (183)
T PRK06217          4 IHITGASGSGTTTLGAALAERLDIPHLDTDDYFWLPTDPPFTTKRPPEERLRLLLEDLRPREGWVLSGSALGWGDPL-E-   81 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeeccCCCCccccCCHHHHHHHHHHHHhcCCCEEEEccHHHHHHHH-H-
Confidence            89999999999999999999999887765521110          11 11222233322223456775433221222 2 


Q ss_pred             cccceeEecCCCCHHHHHHHHHHh
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      .++|..+.+..|.......+..+.
T Consensus        82 ~~~d~~i~Ld~~~~~~~~Rl~~R~  105 (183)
T PRK06217         82 PLFDLVVFLTIPPELRLERLRLRE  105 (183)
T ss_pred             hhCCEEEEEECCHHHHHHHHHcCc
Confidence            378888888888877766666543

>smart00350 MCM minichromosome maintenance proteins

Probab=98.28  E-value=2.2e-06  Score=76.16  Aligned_cols=61  Identities=21%  Similarity=0.377  Sum_probs=39.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe----ecCCccChHHHHH------HH----HhcCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL----ELTTFKENMELRN------ML----IATKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~----~~~~~~~~~~~~~------~~----~~~~~~~il~iDeid~~  100 (204)
                      ++||+|+||||||++|+++++..+...+..    +...+.. ..+..      .+    .....+++++|||++.+
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~-~~~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~l  312 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTA-AVTRDPETREFTLEGGALVLADNGVCCIDEFDKM  312 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccc-cceEccCcceEEecCccEEecCCCEEEEechhhC
Confidence            699999999999999999999886554332    1111211 00000      00    01235789999999998

>PRK00131 aroK shikimate kinase; Reviewed

Probab=98.26  E-value=1.1e-06  Score=66.50  Aligned_cols=34  Identities=26%  Similarity=0.370  Sum_probs=29.9

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .+..++|+|+||||||++++.||+.++.+++..+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            3556999999999999999999999998887654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.26  E-value=5.6e-05  Score=66.27  Aligned_cols=64  Identities=19%  Similarity=0.243  Sum_probs=46.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHH-Hh-----------------cCCCeEEEEec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNML-IA-----------------TKNKSILVVGD   96 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~-~~-----------------~~~~~il~iDe   96 (204)
                      ..+++.|.+||||+++++++....   +.+++.+++..+.. ..+...+ ..                 ...++.|+|||
T Consensus       158 ~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~e  236 (463)
T TIGR01818       158 ITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPK-DLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDE  236 (463)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCH-HHHHHHhcCCCCCCCCCcccCCCCcEEECCCCeEEEEc
Confidence            459999999999999999998875   45899999887633 2222222 21                 12468899999


Q ss_pred             CCccch
Q 041769           97 IDYLTL  102 (204)
Q Consensus        97 id~~~~  102 (204)
                      ++.++.
T Consensus       237 i~~l~~  242 (463)
T TIGR01818       237 IGDMPL  242 (463)
T ss_pred             hhhCCH
Confidence            999944

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.26  E-value=1.9e-05  Score=65.10  Aligned_cols=35  Identities=14%  Similarity=0.306  Sum_probs=28.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC---------CceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN---------FDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~---------~~~~~~~~~~   72 (204)
                      .+++++|++|.|||++++.+++..+         .+++.+++..
T Consensus        62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~  105 (302)
T PF05621_consen   62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPP  105 (302)
T ss_pred             CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCC
Confidence            4699999999999999999998773         3677777643

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.25  E-value=5.4e-05  Score=63.39  Aligned_cols=67  Identities=16%  Similarity=0.223  Sum_probs=44.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC---------------------ceEEee--cCCc-------cChHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF---------------------DVYDLE--LTTF-------KENMELRNMLIAT   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~---------------------~~~~~~--~~~~-------~~~~~~~~~~~~~   86 (204)
                      +.++||+||+|+||+++|.++|+.+-+                     +++.+.  +..-       .....++++....
T Consensus        26 ~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~  105 (319)
T PRK08769         26 GHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKL  105 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHH
Confidence            556999999999999999999987721                     233342  1110       1123445444433


Q ss_pred             ------CCCeEEEEecCCccchh
Q 041769           87 ------KNKSILVVGDIDYLTLH  103 (204)
Q Consensus        87 ------~~~~il~iDeid~~~~~  103 (204)
                            ....|++||++|.++.+
T Consensus       106 ~~~p~~g~~kV~iI~~ae~m~~~  128 (319)
T PRK08769        106 ALTPQYGIAQVVIVDPADAINRA  128 (319)
T ss_pred             hhCcccCCcEEEEeccHhhhCHH
Confidence                  14579999999999543

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

Probab=98.25  E-value=1.4e-05  Score=70.83  Aligned_cols=137  Identities=18%  Similarity=0.195  Sum_probs=92.6

Q ss_pred             hHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC------hHHHHHHHHhcC--CCeEEEEec
Q 041769           25 RKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE------NMELRNMLIATK--NKSILVVGD   96 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~--~~~il~iDe   96 (204)
                      .+..+...+...+.+++++||||+|||.++++++.. +.....++...+..      ...++..+..+.  .++++++|+
T Consensus         6 ~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii~~d~   84 (494)
T COG0464           6 EPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSIIFIDE   84 (494)
T ss_pred             CHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeEeech
Confidence            456677788888999999999999999999999998 54444444444321      234455555553  458999999


Q ss_pred             CCcc--------------------------c--------h--------hhhhhccccceeEecCCCCHHHHHHHHHHhhC
Q 041769           97 IDYL--------------------------T--------L--------HILLRSSCMDMHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus        97 id~~--------------------------~--------~--------~a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                      ++.+                          .        .        .++.+++||+..+.+..|+...+..+......
T Consensus        85 ~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~  164 (494)
T COG0464          85 IDALAPKRSSDQGEVERRVVAQLLALMDGLKRGQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTR  164 (494)
T ss_pred             hhhcccCccccccchhhHHHHHHHHhcccccCCceEEEeecCCccccChhHhCccccceeeecCCCCHHHHHHHHHHHHh
Confidence            9998                          1        0        06777899999999999999887665554433


Q ss_pred             CCCCCcHHHHHH-HhhhCCCCHHHHHHHH
Q 041769          135 ITEHPLLTEIDE-LIEKANVTLADVVEQL  162 (204)
Q Consensus       135 ~~~~~~~~~~~~-~~~~~~l~~~~i~~~~  162 (204)
                      ............ .....++..+++..++
T Consensus       165 ~~~~~~~~~~~~~a~~~~~~~~~~~~~l~  193 (494)
T COG0464         165 LMFLGPPGTGKTLAARTVGKSGADLGALA  193 (494)
T ss_pred             cCCCcccccHHHHHHhcCCccHHHHHHHH
Confidence            221111112222 2233677777777666

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=98.24  E-value=1.2e-06  Score=67.27  Aligned_cols=37  Identities=32%  Similarity=0.471  Sum_probs=30.4

Q ss_pred             hHHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           25 RKEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .++++.++.+..+.|  +++.||+|+|||||++.|....
T Consensus        14 g~~aL~~vs~~i~~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          14 GREALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             CchhhhCceEeecCceEEEEECCCCCCHHHHHHHHHhhh
Confidence            345677777777776  7899999999999999999954

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.22  E-value=8.1e-05  Score=62.81  Aligned_cols=66  Identities=23%  Similarity=0.300  Sum_probs=46.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC------------------------CceEEeecCC---ccChHHHHHHHHhc---
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN------------------------FDVYDLELTT---FKENMELRNMLIAT---   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~------------------------~~~~~~~~~~---~~~~~~~~~~~~~~---   86 (204)
                      +.++||+||+|+||+++|.++|+.+-                        ++++.+....   ......++++....   
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~  103 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH  103 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence            55699999999999999999999882                        2344443321   12334555555443   


Q ss_pred             ---CCCeEEEEecCCccch
Q 041769           87 ---KNKSILVVGDIDYLTL  102 (204)
Q Consensus        87 ---~~~~il~iDeid~~~~  102 (204)
                         ....|++||++|.++.
T Consensus       104 ~~~g~~kV~iI~~ae~m~~  122 (334)
T PRK07993        104 ARLGGAKVVWLPDAALLTD  122 (334)
T ss_pred             cccCCceEEEEcchHhhCH
Confidence               2567999999999954

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.22  E-value=4.7e-05  Score=66.42  Aligned_cols=65  Identities=22%  Similarity=0.259  Sum_probs=47.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHH-HHh-----------------cCCCeEEEEec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNM-LIA-----------------TKNKSILVVGD   96 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~-~~~-----------------~~~~~il~iDe   96 (204)
                      ..++++|++||||+++|+++....   +.+++.+++..+.. ..+... |..                 ...++.|+|||
T Consensus       163 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~  241 (445)
T TIGR02915       163 ITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPE-NLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDE  241 (445)
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCCh-HHHHHHhcCCCCCCcCCCccCCCCceeECCCCEEEEec
Confidence            459999999999999999998776   35789999887643 223222 220                 13568999999


Q ss_pred             CCccchh
Q 041769           97 IDYLTLH  103 (204)
Q Consensus        97 id~~~~~  103 (204)
                      ++.++..
T Consensus       242 i~~l~~~  248 (445)
T TIGR02915       242 IGDLPLN  248 (445)
T ss_pred             hhhCCHH
Confidence            9999443

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).

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.21  E-value=3.5e-05  Score=69.41  Aligned_cols=62  Identities=19%  Similarity=0.462  Sum_probs=43.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccChHHH----------------------HHHHH--
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKENMEL----------------------RNMLI--   84 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~~~~~----------------------~~~~~--   84 (204)
                      .+++.|-||||||.+++.+...+          ...++.+|.-.+....++                      ...|.  
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~  503 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTVP  503 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccC
Confidence            58999999999999999999966          346666665544332222                      12222  


Q ss_pred             -hcCCCeEEEEecCCcc
Q 041769           85 -ATKNKSILVVGDIDYL  100 (204)
Q Consensus        85 -~~~~~~il~iDeid~~  100 (204)
                       .-...+||+|||.|.+
T Consensus       504 k~~~~~~VvLiDElD~L  520 (767)
T KOG1514|consen  504 KPKRSTTVVLIDELDIL  520 (767)
T ss_pred             CCCCCCEEEEeccHHHH
Confidence             0125789999999998

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.17  E-value=3.8e-05  Score=62.39  Aligned_cols=24  Identities=33%  Similarity=0.670  Sum_probs=21.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++||||+|+||-|.+-++-+++
T Consensus        35 PHll~yGPSGaGKKTrimclL~el   58 (351)
T KOG2035|consen   35 PHLLVYGPSGAGKKTRIMCLLREL   58 (351)
T ss_pred             CeEEEECCCCCCchhhHHHHHHHH
Confidence            459999999999999999998887

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=98.17  E-value=1.2e-06  Score=64.34  Aligned_cols=28  Identities=39%  Similarity=0.645  Sum_probs=24.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++++||||+||||+++.+++.++..++.
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~~i~   29 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAVVIS   29 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCEEEe
Confidence            6899999999999999999999844443

...

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=98.16  E-value=1.7e-05  Score=58.26  Aligned_cols=30  Identities=27%  Similarity=0.465  Sum_probs=27.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.+.|+||+||||+++.|+..++.+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            679999999999999999999999887766

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.14  E-value=1.7e-05  Score=77.18  Aligned_cols=61  Identities=25%  Similarity=0.450  Sum_probs=49.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHH--------------------HHhcCCCeEEEEec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNM--------------------LIATKNKSILVVGD   96 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~il~iDe   96 (204)
                      .++++|-|.||+|||+++.++|+..|..++.+++++..   ++...                    +.+...+..+++||
T Consensus      1543 ~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQT---dL~DLfGsd~Pve~~Gef~w~dapfL~amr~G~WVlLDE 1619 (4600)
T COG5271        1543 GKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQT---DLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDGGWVLLDE 1619 (4600)
T ss_pred             CCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccc---hHHHHhCCCCCcccCceeEecccHHHHHhhcCCEEEeeh
Confidence            56699999999999999999999999999999988732   22222                    23334678999999


Q ss_pred             CCcc
Q 041769           97 IDYL  100 (204)
Q Consensus        97 id~~  100 (204)
                      +...
T Consensus      1620 iNLa 1623 (4600)
T COG5271        1620 INLA 1623 (4600)
T ss_pred             hhhh
Confidence            9987

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

Probab=98.14  E-value=7.4e-06  Score=68.15  Aligned_cols=70  Identities=16%  Similarity=0.274  Sum_probs=55.2

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~   73 (204)
                      .++|+.+.|..+.=.++.-+.+.++-..+.- -.|..+|..||.|+|||.+||-||+..+.||+.+.+..+
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKf   86 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKF   86 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeee
Confidence            4688988888887777776665554444332 235679999999999999999999999999999887654

>PRK03839 putative kinase; Provisional

Probab=98.13  E-value=2.4e-06  Score=65.49  Aligned_cols=30  Identities=27%  Similarity=0.565  Sum_probs=27.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|.|+||+||||+++.||+.++.+++.++
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            789999999999999999999998887654

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.13  E-value=1.9e-05  Score=65.10  Aligned_cols=36  Identities=25%  Similarity=0.388  Sum_probs=29.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc----C-CceEEeecCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL----N-FDVYDLELTTF   73 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~----~-~~~~~~~~~~~   73 (204)
                      ..++|+||+|+||||++..||..+    | ..+..++....
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~  235 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTY  235 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCcc
Confidence            348899999999999999998876    3 67777776653

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.11  E-value=0.00011  Score=62.11  Aligned_cols=28  Identities=25%  Similarity=0.373  Sum_probs=24.8

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+.++||+||+|+||+++|+.+|+.+.
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~Ll   46 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLL   46 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHc
Confidence            4466799999999999999999999883

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=3.3e-05  Score=64.95  Aligned_cols=67  Identities=13%  Similarity=0.260  Sum_probs=46.8

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhcC-------------------------CceEEeecCC----------ccChHHHH
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYLN-------------------------FDVYDLELTT----------FKENMELR   80 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~~-------------------------~~~~~~~~~~----------~~~~~~~~   80 (204)
                      .+.+++|+||+|+|||++|+.+|+.+.                         ++++.+.+.+          -.....++
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR   99 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVR   99 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHH
Confidence            356699999999999999999999873                         3455555421          01234555


Q ss_pred             HHHHhc------CCCeEEEEecCCccch
Q 041769           81 NMLIAT------KNKSILVVGDIDYLTL  102 (204)
Q Consensus        81 ~~~~~~------~~~~il~iDeid~~~~  102 (204)
                      ++....      ....|++||+++.++.
T Consensus       100 ~l~~~~~~~p~~~~~kV~iiEp~~~Ld~  127 (325)
T PRK08699        100 EIIDNVYLTSVRGGLRVILIHPAESMNL  127 (325)
T ss_pred             HHHHHHhhCcccCCceEEEEechhhCCH
Confidence            554444      2467999999999933

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.09  E-value=1e-05  Score=60.06  Aligned_cols=32  Identities=22%  Similarity=0.515  Sum_probs=26.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ++++||||+|||+++..++...   +.+++.++..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e   36 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIE   36 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECC
Confidence            6899999999999999999887   4566665543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=98.09  E-value=3.6e-06  Score=62.55  Aligned_cols=30  Identities=27%  Similarity=0.424  Sum_probs=27.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++++|+||+|||++++.|+..++.+++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            789999999999999999999999887765

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK15115 response regulator GlrR; Provisional

Probab=98.09  E-value=0.00013  Score=63.62  Aligned_cols=64  Identities=20%  Similarity=0.231  Sum_probs=47.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHH-HHh-----------------cCCCeEEEEec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNM-LIA-----------------TKNKSILVVGD   96 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~-~~~-----------------~~~~~il~iDe   96 (204)
                      ..++++|++|||||++|+++....   +.+++.+++..+.. ..+... |..                 ...++.|||||
T Consensus       158 ~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~  236 (444)
T PRK15115        158 VSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPE-QLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLDE  236 (444)
T ss_pred             CeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCH-HHHHHHhcCCCcCCCCCCccCCCCcEEECCCCEEEEEc
Confidence            459999999999999999998876   46899999887633 222222 211                 13568999999


Q ss_pred             CCccch
Q 041769           97 IDYLTL  102 (204)
Q Consensus        97 id~~~~  102 (204)
                      ++.++.
T Consensus       237 i~~l~~  242 (444)
T PRK15115        237 IGDMPA  242 (444)
T ss_pred             cccCCH
Confidence            999844

>PRK13947 shikimate kinase; Provisional

Probab=98.08  E-value=3.9e-06  Score=63.65  Aligned_cols=32  Identities=28%  Similarity=0.401  Sum_probs=29.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .+++.|+||||||++++.||..+|.+++..+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~   34 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDK   34 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECch
Confidence            48999999999999999999999999887663

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=98.08  E-value=5.3e-06  Score=63.79  Aligned_cols=25  Identities=36%  Similarity=0.757  Sum_probs=22.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +++.||||+||||+|+.|++.++.+
T Consensus         3 iiilG~pGaGK~T~A~~La~~~~i~   27 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKKLGLP   27 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCc
Confidence            7899999999999999999995543

>PRK13949 shikimate kinase; Provisional

Probab=98.07  E-value=3.9e-06  Score=63.97  Aligned_cols=31  Identities=35%  Similarity=0.541  Sum_probs=28.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .++|+|+||+||||+++.||+.++.+++..+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            4899999999999999999999999888866

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.06  E-value=2.1e-06  Score=65.57  Aligned_cols=59  Identities=20%  Similarity=0.251  Sum_probs=34.2

Q ss_pred             ccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc---eEEeecCCc
Q 041769            5 LAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD---VYDLELTTF   73 (204)
Q Consensus         5 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~---~~~~~~~~~   73 (204)
                      ++|.++..+++...+. .....         .+..++++|++|+|||++++.+...+...   ++.++....
T Consensus         2 fvgR~~e~~~l~~~l~-~~~~~---------~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-AAQSG---------SPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-GTSS--------------EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHH-HHHcC---------CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            4566666666655443 11111         14569999999999999999988888443   666655544

>PRK00625 shikimate kinase; Provisional

Probab=98.06  E-value=4.2e-06  Score=64.08  Aligned_cols=30  Identities=33%  Similarity=0.671  Sum_probs=28.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|+|.||+||||+++.+|+.++.+++.+|
T Consensus         3 I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            899999999999999999999999988766

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.05  E-value=5.8e-06  Score=65.57  Aligned_cols=62  Identities=23%  Similarity=0.433  Sum_probs=38.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC----------------ccChHHHHHHHHhc----CCCeEEEEec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT----------------FKENMELRNMLIAT----KNKSILVVGD   96 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~----~~~~il~iDe   96 (204)
                      +.-++|||+||+||||+|+.++..  .-++..+.+.                ...-..+.+.+...    .....|+||.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~~--~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDs   89 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPGK--TLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDN   89 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCCC--CEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEEEEec
Confidence            344999999999999999998742  1122222211                01112333333332    3578999999


Q ss_pred             CCcc
Q 041769           97 IDYL  100 (204)
Q Consensus        97 id~~  100 (204)
                      ++.+
T Consensus        90 I~~l   93 (220)
T TIGR01618        90 ISAL   93 (220)
T ss_pred             HHHH
Confidence            9987

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.05  E-value=7.8e-05  Score=62.57  Aligned_cols=66  Identities=20%  Similarity=0.243  Sum_probs=45.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC------------------------ceEEeecC--CccChHHHHHHHHhc----
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF------------------------DVYDLELT--TFKENMELRNMLIAT----   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~------------------------~~~~~~~~--~~~~~~~~~~~~~~~----   86 (204)
                      +.++||+||+|+||+++|+.+|+.+-+                        +++.+...  .-.+...++++....    
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~  103 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA  103 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence            556999999999999999999998832                        23334321  112335556554443    


Q ss_pred             --CCCeEEEEecCCccch
Q 041769           87 --KNKSILVVGDIDYLTL  102 (204)
Q Consensus        87 --~~~~il~iDeid~~~~  102 (204)
                        ....|++||++|.++.
T Consensus       104 ~~g~~KV~iI~~a~~m~~  121 (325)
T PRK06871        104 QQGGNKVVYIQGAERLTE  121 (325)
T ss_pred             ccCCceEEEEechhhhCH
Confidence              2567999999999943

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=98.05  E-value=4.6e-06  Score=63.94  Aligned_cols=29  Identities=28%  Similarity=0.553  Sum_probs=25.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++++|||||||||+++.||..+|...++.
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~   30 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA   30 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68999999999999999999998655553

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=98.02  E-value=5.6e-06  Score=61.47  Aligned_cols=28  Identities=29%  Similarity=0.419  Sum_probs=24.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++|+|+||+||||+++.++..++..++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6899999999999999999998766544

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.02  E-value=7.7e-06  Score=66.17  Aligned_cols=97  Identities=15%  Similarity=0.076  Sum_probs=53.0

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCce--EEeecCCcc--ChHHHHHHHHhcCCCeEEEEecCCccc
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDV--YDLELTTFK--ENMELRNMLIATKNKSILVVGDIDYLT  101 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~~~~il~iDeid~~~  101 (204)
                      .++++.+..+.|  +.+.||+|+|||||++++++.+.+.-  +.++..++.  ...++.+.+.-.++.. .   ....++
T Consensus        17 il~~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~~~~~kelAk~ia~vpQ~~-~---~~~~~t   92 (258)
T COG1120          17 ILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIASLSPKELAKKLAYVPQSP-S---APFGLT   92 (258)
T ss_pred             EEecceEEecCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchhhcCHHHHhhhEEEeccCC-C---CCCCcE
Confidence            344445544444  78999999999999999999886433  444444432  2233333322222110 0   000111


Q ss_pred             hhhhhhccccceeEecCCCCHHHHHHH
Q 041769          102 LHILLRSSCMDMHIHMSYCTPFRFKML  128 (204)
Q Consensus       102 ~~a~~r~~R~~~~i~~~~p~~~~~~~i  128 (204)
                      .-.+.--||+...=.+..++.+....+
T Consensus        93 V~d~V~~GR~p~~~~~~~~~~~D~~~v  119 (258)
T COG1120          93 VYELVLLGRYPHLGLFGRPSKEDEEIV  119 (258)
T ss_pred             EeehHhhcCCcccccccCCCHhHHHHH
Confidence            112333468877667777777765433

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.01  E-value=1.6e-05  Score=71.22  Aligned_cols=95  Identities=19%  Similarity=0.272  Sum_probs=57.6

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeec----CCcc----
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL----TTFK----   74 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~----~~~~----   74 (204)
                      ++++.+++|+.+  .++.|-+..+.+...| +....++||+|.||||||.+++.+.+.++..++.-=-    .++.    
T Consensus       430 sIye~edvKkgl--LLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVt  507 (804)
T KOG0478|consen  430 SIYELEDVKKGL--LLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVT  507 (804)
T ss_pred             hhhcccchhhhH--HHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEE
Confidence            356666777765  3444544444444433 3334569999999999999999999988766554211    1110    


Q ss_pred             ChHHHHHHHHh-----cCCCeEEEEecCCcc
Q 041769           75 ENMELRNMLIA-----TKNKSILVVGDIDYL  100 (204)
Q Consensus        75 ~~~~~~~~~~~-----~~~~~il~iDeid~~  100 (204)
                      ...+-++.+.+     +..+++=+|||+|++
T Consensus       508 rd~dtkqlVLesGALVLSD~GiCCIDEFDKM  538 (804)
T KOG0478|consen  508 KDPDTRQLVLESGALVLSDNGICCIDEFDKM  538 (804)
T ss_pred             ecCccceeeeecCcEEEcCCceEEchhhhhh
Confidence            00111111111     136788899999999

>PRK14532 adenylate kinase; Provisional

Probab=98.00  E-value=6.1e-06  Score=63.66  Aligned_cols=29  Identities=21%  Similarity=0.425  Sum_probs=26.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +++.||||+||||+++.||+.+|...++.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g~~~is~   31 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERGMVQLST   31 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence            88999999999999999999999777654

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.00  E-value=9.3e-06  Score=68.14  Aligned_cols=31  Identities=29%  Similarity=0.508  Sum_probs=24.2

Q ss_pred             HhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           31 NVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        31 ~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+.+....|  +.|.||+||||||++|.||+..
T Consensus        21 ~i~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          21 DVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444  8899999999999999999943

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.00  E-value=2.4e-05  Score=66.74  Aligned_cols=64  Identities=22%  Similarity=0.368  Sum_probs=45.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----C-CceEEeecCCcc----------------------ChHHHHHHHHhcCCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----N-FDVYDLELTTFK----------------------ENMELRNMLIATKNK   89 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~   89 (204)
                      +..++|+||+|+||||++..||..+    | ..+..++...+.                      ...++...+......
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~  216 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNK  216 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCC
Confidence            3458999999999999999999864    3 355555554432                      122344445555677


Q ss_pred             eEEEEecCCcc
Q 041769           90 SILVVGDIDYL  100 (204)
Q Consensus        90 ~il~iDeid~~  100 (204)
                      .+|+||.....
T Consensus       217 DlVLIDTaG~~  227 (374)
T PRK14722        217 HMVLIDTIGMS  227 (374)
T ss_pred             CEEEEcCCCCC
Confidence            89999999887

>PHA02774 E1; Provisional

Probab=98.00  E-value=1.5e-05  Score=70.85  Aligned_cols=58  Identities=26%  Similarity=0.378  Sum_probs=41.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCce-EEeecCCccChHHHHHHHHhcCCCeEEEEecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDV-YDLELTTFKENMELRNMLIATKNKSILVVGDI   97 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   97 (204)
                      +.|..++++||||||||||+++-+|++.++..+ ..+|-.+.--       ++.+....++++||+
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~s~Fw-------Lqpl~d~ki~vlDD~  488 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSKSHFW-------LQPLADAKIALLDDA  488 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECccccc-------cchhccCCEEEEecC
Confidence            556667899999999999999999999986444 3355422100       233334568999998

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=98.00  E-value=5.9e-06  Score=62.24  Aligned_cols=28  Identities=29%  Similarity=0.580  Sum_probs=24.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +++.||||+||||+++.+++.++..++.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~   28 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIE   28 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEe
Confidence            4689999999999999999999866544

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.00  E-value=4.4e-05  Score=65.53  Aligned_cols=64  Identities=20%  Similarity=0.447  Sum_probs=45.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc-------CCceEEeecCCccC----------------------hHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL-------NFDVYDLELTTFKE----------------------NMELRNMLIATK   87 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~-------~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~   87 (204)
                      +..++|+||+|+||||++..+|..+       +..+..+++...+.                      ...+...+....
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~  253 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSK  253 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhC
Confidence            3458999999999999999998765       35566665544321                      133444444455


Q ss_pred             CCeEEEEecCCcc
Q 041769           88 NKSILVVGDIDYL  100 (204)
Q Consensus        88 ~~~il~iDeid~~  100 (204)
                      ...+|+||.+...
T Consensus       254 ~~DlVLIDTaGr~  266 (388)
T PRK12723        254 DFDLVLVDTIGKS  266 (388)
T ss_pred             CCCEEEEcCCCCC
Confidence            6789999999887

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=97.99  E-value=0.00023  Score=61.94  Aligned_cols=64  Identities=19%  Similarity=0.271  Sum_probs=47.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHh------------------cCCCeEEEEec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIA------------------TKNKSILVVGD   96 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~il~iDe   96 (204)
                      ..++++|.+||||+++++++....   +.+++.++++.+.. ..+...+..                  ...++.|||||
T Consensus       163 ~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~lde  241 (441)
T PRK10365        163 ATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNE-SLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDE  241 (441)
T ss_pred             CeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCH-HHHHHHhcCCCCCCcCCCCcCCCCceeECCCCEEEEec
Confidence            459999999999999999998765   46899999987643 333332211                  12468899999


Q ss_pred             CCccch
Q 041769           97 IDYLTL  102 (204)
Q Consensus        97 id~~~~  102 (204)
                      ++.+..
T Consensus       242 i~~l~~  247 (441)
T PRK10365        242 IGDISP  247 (441)
T ss_pred             cccCCH
Confidence            999943

>PLN03210 Resistant to P

Probab=97.98  E-value=0.00017  Score=70.17  Aligned_cols=27  Identities=22%  Similarity=0.365  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+-+.++|++|+||||+|+++++.+..
T Consensus       207 ~~vvgI~G~gGiGKTTLA~~l~~~l~~  233 (1153)
T PLN03210        207 VRMVGIWGSSGIGKTTIARALFSRLSR  233 (1153)
T ss_pred             eEEEEEEcCCCCchHHHHHHHHHHHhh
Confidence            345889999999999999999887743

syringae 6; Provisional

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=97.97  E-value=2.9e-05  Score=70.21  Aligned_cols=63  Identities=21%  Similarity=0.303  Sum_probs=42.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC--ceEEeecCC----ccChHHHHHHHHh-----------cCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF--DVYDLELTT----FKENMELRNMLIA-----------TKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~--~~~~~~~~~----~~~~~~~~~~~~~-----------~~~~~il~iDeid~~  100 (204)
                      .|++|.|+||||||+++++++..++.  +++.++...    +-+.-.+...+..           ...+++||+||++.+
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~rl   96 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVLYVDMANLL   96 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCcEeccchhhC
Confidence            46999999999999999999998865  467666421    1111111111110           134579999999999

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.

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.96  E-value=2.2e-05  Score=65.54  Aligned_cols=35  Identities=29%  Similarity=0.365  Sum_probs=30.6

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..+..++|.|+||+|||++++.+|..+|.+++.++
T Consensus       131 ~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        131 ARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            33556999999999999999999999999998654

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.96  E-value=1.4e-05  Score=67.41  Aligned_cols=33  Identities=24%  Similarity=0.457  Sum_probs=26.2

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHH
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~   59 (204)
                      ..++++.+....|  +-|.|||||||||++|+||+
T Consensus        19 ~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          19 TAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             eEEecceeeecCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3445555666666  66999999999999999999

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.95  E-value=2.4e-05  Score=59.76  Aligned_cols=33  Identities=15%  Similarity=0.251  Sum_probs=28.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      +++.|+||+|||++|..++..++.+++++....
T Consensus         4 ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~   36 (170)
T PRK05800          4 ILVTGGARSGKSRFAERLAAQSGLQVLYIATAQ   36 (170)
T ss_pred             EEEECCCCccHHHHHHHHHHHcCCCcEeCcCCC
Confidence            789999999999999999999887777766544

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.95  E-value=1e-05  Score=63.43  Aligned_cols=44  Identities=25%  Similarity=0.417  Sum_probs=32.3

Q ss_pred             HHHHHHHhHHHHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhc
Q 041769           18 DLERFVKRKEFYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++..+++.++.+.++.+..+.  -.-|.||+||||||++|++-+..
T Consensus        12 ~l~~yYg~~~aL~~i~l~i~~~~VTAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          12 DLNLYYGDKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             ceeEEECchhhhccCceeccCCceEEEECCCCcCHHHHHHHHHhhc
Confidence            344555666667766654444  37799999999999999998854

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.95  E-value=8.8e-06  Score=62.83  Aligned_cols=29  Identities=24%  Similarity=0.509  Sum_probs=26.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++++||||+||||+++.||..+|...+.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            78999999999999999999998776654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.95  E-value=1.3e-05  Score=65.62  Aligned_cols=91  Identities=19%  Similarity=0.223  Sum_probs=55.0

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc-----eE-----EeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD-----VY-----DLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~-----~~-----~~~~~~~   73 (204)
                      .+.|+.-+++.|...+..++.++.-      ..|--+-|||++||||+..++.||+.+-..     ++     ..+...-
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p------~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~  156 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNP------RKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHA  156 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCC------CCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCCh
Confidence            3567777777777777766654321      112336699999999999999999987221     11     1111111


Q ss_pred             cC----hHHHHHHHHh---cCCCeEEEEecCCcc
Q 041769           74 KE----NMELRNMLIA---TKNKSILVVGDIDYL  100 (204)
Q Consensus        74 ~~----~~~~~~~~~~---~~~~~il~iDeid~~  100 (204)
                      ..    ..++.+.+..   ....++.++||+|.+
T Consensus       157 ~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  157 SKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCceEEechhhhc
Confidence            11    1222222222   236789999999999

>TIGR00368 Mg chelatase-related protein

Probab=97.94  E-value=9.9e-06  Score=71.70  Aligned_cols=25  Identities=40%  Similarity=0.891  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +..++|+||||+|||++++.+++.+
T Consensus       211 g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       211 GHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CCEEEEEecCCCCHHHHHHHHhccc
Confidence            3459999999999999999999865

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK14530 adenylate kinase; Provisional

Probab=97.94  E-value=1.1e-05  Score=63.82  Aligned_cols=29  Identities=21%  Similarity=0.456  Sum_probs=26.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .++|.||||+||||+++.||+.+|.+.+.
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~   33 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHVT   33 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            48999999999999999999999987664

>PRK13808 adenylate kinase; Provisional

Probab=97.94  E-value=0.00028  Score=59.31  Aligned_cols=90  Identities=12%  Similarity=0.211  Sum_probs=55.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc------------------------cChHHHHHHHHh----cCCCeE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF------------------------KENMELRNMLIA----TKNKSI   91 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~----~~~~~i   91 (204)
                      ++|+||||+||||+++.|+..+|...+.+  .++                        .....+..++..    .....-
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~--gdlLR~~i~~~s~~g~~~~~~~~~G~lVPdeiv~~li~e~l~~~~~~~G   80 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQYGIVQLST--GDMLRAAVAAGTPVGLKAKDIMASGGLVPDEVVVGIISDRIEQPDAANG   80 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceecc--cHHHHHHhhcCChhhHHHHHHHHcCCCCCHHHHHHHHHHHHhcccccCC
Confidence            88999999999999999999998766554  111                        111222222222    122235


Q ss_pred             EEEecCCcc-----chhhhhh--ccccceeEecCCCCHHHHHHHHHH
Q 041769           92 LVVGDIDYL-----TLHILLR--SSCMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus        92 l~iDeid~~-----~~~a~~r--~~R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                      ++||.+-.-     .+..++.  ....|..|.+..|....+..+..+
T Consensus        81 ~ILDGFPRt~~QA~~L~~ll~~~gi~PDlVI~LDVp~evll~Rl~~R  127 (333)
T PRK13808         81 FILDGFPRTVPQAEALDALLKDKQLKLDAVVELRVNEGALLARVETR  127 (333)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHhcCCCcCeEEEEECCHHHHHHHHHcC
Confidence            778887764     2222222  125778888888887766655544

>PRK06762 hypothetical protein; Provisional

Probab=97.94  E-value=1.3e-05  Score=60.50  Aligned_cols=33  Identities=15%  Similarity=0.273  Sum_probs=27.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .-++++|+||+||||+++.+++.++..++.++.
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~   35 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQ   35 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEecH
Confidence            347899999999999999999999766666554

>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=97.93  E-value=1.3e-05  Score=68.33  Aligned_cols=67  Identities=16%  Similarity=0.323  Sum_probs=42.4

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhcCC-ceEEeecCCc-----------c-ChHHHHHHHHhcC-CCeEEEEecCCc
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-DVYDLELTTF-----------K-ENMELRNMLIATK-NKSILVVGDIDY   99 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-~~~~~~~~~~-----------~-~~~~~~~~~~~~~-~~~il~iDeid~   99 (204)
                      .+.++|++|||++|+|||.|+-.+...++. .-..+.....           . ....+..+..... ...+|+|||++.
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~~~~~lLcfDEF~V  138 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELAKESRLLCFDEFQV  138 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHHhcCCEEEEeeeec
Confidence            356889999999999999999999998854 1111111111           1 1122223333333 344999999998


Q ss_pred             c
Q 041769          100 L  100 (204)
Q Consensus       100 ~  100 (204)
                      -
T Consensus       139 ~  139 (362)
T PF03969_consen  139 T  139 (362)
T ss_pred             c
Confidence            7

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

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.93  E-value=0.00056  Score=57.30  Aligned_cols=66  Identities=15%  Similarity=0.140  Sum_probs=45.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC-----------------------CceEEeecCC---ccChHHHHHHHHhc----
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN-----------------------FDVYDLELTT---FKENMELRNMLIAT----   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~-----------------------~~~~~~~~~~---~~~~~~~~~~~~~~----   86 (204)
                      +.++||+||.|+||+++|+.+|+.+-                       ++++.+....   ......++++....    
T Consensus        25 ~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~~~  104 (319)
T PRK06090         25 PGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQESS  104 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhhCc
Confidence            55699999999999999999999872                       2454454421   12334555544333    


Q ss_pred             --CCCeEEEEecCCccch
Q 041769           87 --KNKSILVVGDIDYLTL  102 (204)
Q Consensus        87 --~~~~il~iDeid~~~~  102 (204)
                        ....|++||++|.++.
T Consensus       105 ~~~~~kV~iI~~ae~m~~  122 (319)
T PRK06090        105 QLNGYRLFVIEPADAMNE  122 (319)
T ss_pred             ccCCceEEEecchhhhCH
Confidence              2467999999999944

>PRK13948 shikimate kinase; Provisional

Probab=97.92  E-value=1.5e-05  Score=61.57  Aligned_cols=33  Identities=27%  Similarity=0.216  Sum_probs=30.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +..++|.|.+|+||||+++.||+.++.+++..|
T Consensus        10 ~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948         10 VTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            466999999999999999999999999998766

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.92  E-value=1.3e-05  Score=61.25  Aligned_cols=33  Identities=36%  Similarity=0.675  Sum_probs=29.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      ..++|.|++|+||||+++.+++.++.+++..+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            459999999999999999999999988877663

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.92  E-value=9.5e-06  Score=62.02  Aligned_cols=32  Identities=25%  Similarity=0.281  Sum_probs=26.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +-++|.|+||+||||+++.|+..++..++.++
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~   34 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFG   34 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccC
Confidence            34889999999999999999999877655443

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.91  E-value=1e-05  Score=61.50  Aligned_cols=32  Identities=31%  Similarity=0.419  Sum_probs=29.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..++|+|++|+||||+.+.||+.++.+++..|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            34899999999999999999999999998765

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.91  E-value=0.00076  Score=58.53  Aligned_cols=88  Identities=20%  Similarity=0.315  Sum_probs=54.7

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCccChH-
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTFKENM-   77 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~~~~~-   77 (204)
                      .+.|.......+.+++..++..+.         +..+++.|.||+|||.+..-+-..++     ...++++.-++.... 
T Consensus       151 ~l~gRe~e~~~v~~F~~~hle~~t---------~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~a  221 (529)
T KOG2227|consen  151 TLKGRELEMDIVREFFSLHLELNT---------SGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASA  221 (529)
T ss_pred             CccchHHHHHHHHHHHHhhhhccc---------CcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHH
Confidence            345555555666566665554332         45599999999999999887666663     234667766553221 


Q ss_pred             HHHHHHHh------------------------cCCCeEEEEecCCcc
Q 041769           78 ELRNMLIA------------------------TKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~~~~~~~~------------------------~~~~~il~iDeid~~  100 (204)
                      .+..++..                        ....-++++||+|.+
T Consensus       222 iF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L  268 (529)
T KOG2227|consen  222 IFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHL  268 (529)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHH
Confidence            11111111                        124679999999998

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.91  E-value=1.1e-05  Score=60.50  Aligned_cols=28  Identities=21%  Similarity=0.494  Sum_probs=26.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +-+.|||||||||+++.||..+|.++++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            5688999999999999999999999887

>PRK14531 adenylate kinase; Provisional

Probab=97.91  E-value=1.4e-05  Score=61.53  Aligned_cols=30  Identities=23%  Similarity=0.458  Sum_probs=26.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -++++||||+||||+++.||..+|...++.
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            489999999999999999999998776553

>PF05729 NACHT: NACHT domain

Probab=97.90  E-value=3.3e-05  Score=57.62  Aligned_cols=22  Identities=36%  Similarity=0.788  Sum_probs=20.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++++|+||+|||++++.++..+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            7899999999999999999887

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.89  E-value=1.3e-05  Score=61.43  Aligned_cols=29  Identities=24%  Similarity=0.497  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +++.||||+||||+++.|++.+|...+..
T Consensus         6 i~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         6 IFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            78999999999999999999998766553

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.88  E-value=0.00011  Score=56.85  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-++|+||||+|||++++.|....+
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~~   29 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEHP   29 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcCC
Confidence            34488999999999999999998764

>PRK06547 hypothetical protein; Provisional

Probab=97.87  E-value=2.7e-05  Score=59.60  Aligned_cols=33  Identities=24%  Similarity=0.486  Sum_probs=27.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.-+++.|++|+||||+++.|++.++..++.++
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            344888999999999999999999887766554

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.87  E-value=5.7e-05  Score=58.93  Aligned_cols=65  Identities=29%  Similarity=0.403  Sum_probs=40.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHH-----------Hh-----------cCCCeEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNML-----------IA-----------TKNKSIL   92 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~-----------~~-----------~~~~~il   92 (204)
                      +.+++.||||||||++++.+...+   |..++.+.+..-. ...+.+..           ..           .....+|
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~A-a~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vl   97 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKA-AKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVL   97 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHH-HHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEE
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHH-HHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEE
Confidence            347888999999999999988766   5677666554321 11122221           11           1234799


Q ss_pred             EEecCCccchh
Q 041769           93 VVGDIDYLTLH  103 (204)
Q Consensus        93 ~iDeid~~~~~  103 (204)
                      +|||+..+...
T Consensus        98 iVDEasmv~~~  108 (196)
T PF13604_consen   98 IVDEASMVDSR  108 (196)
T ss_dssp             EESSGGG-BHH
T ss_pred             EEecccccCHH
Confidence            99999998443

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=97.87  E-value=3.6e-05  Score=68.63  Aligned_cols=97  Identities=19%  Similarity=0.201  Sum_probs=58.1

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHH-HHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEee----cCCcc--
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKE-FYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE----LTTFK--   74 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~----~~~~~--   74 (204)
                      |-.++|.+.+|..|  .+..|-+-++ .-....+..-.+++++|.||+|||.++++.+.-++..++..=    .+++.  
T Consensus       344 ~PsIyGhe~VK~Gi--lL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTaa  421 (764)
T KOG0480|consen  344 FPSIYGHELVKAGI--LLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTAA  421 (764)
T ss_pred             CccccchHHHHhhH--HHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceEE
Confidence            34577777777776  3344433221 112222333346999999999999999999998888777631    12221  


Q ss_pred             ---ChHHHHHHHHh----cCCCeEEEEecCCcc
Q 041769           75 ---ENMELRNMLIA----TKNKSILVVGDIDYL  100 (204)
Q Consensus        75 ---~~~~~~~~~~~----~~~~~il~iDeid~~  100 (204)
                         ....-.=++++    +..++|=.|||+|.+
T Consensus       422 VvkD~esgdf~iEAGALmLADnGICCIDEFDKM  454 (764)
T KOG0480|consen  422 VVKDEESGDFTIEAGALMLADNGICCIDEFDKM  454 (764)
T ss_pred             EEecCCCCceeeecCcEEEccCceEEechhccc
Confidence               00000001111    146789999999999

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.87  E-value=5.5e-05  Score=59.17  Aligned_cols=70  Identities=16%  Similarity=0.294  Sum_probs=43.5

Q ss_pred             HHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceE----Ee-------ecC---Cc----c----ChHHHHHH
Q 041769           30 RNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVY----DL-------ELT---TF----K----ENMELRNM   82 (204)
Q Consensus        30 ~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~----~~-------~~~---~~----~----~~~~~~~~   82 (204)
                      .++.+..+..++|.||+|+||||+++.++...     |.++-    .+       .+.   ++    .    ....+.++
T Consensus        18 n~i~l~~g~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l~~~~~~~d~l~~~~s~~~~e~~~~~~i   97 (199)
T cd03283          18 NDIDMEKKNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFYAELRRLKEI   97 (199)
T ss_pred             ceEEEcCCcEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceEEEeccchhccccccChHHHHHHHHHHH
Confidence            33444445568999999999999999999644     43321    00       000   00    0    01334566


Q ss_pred             HHhcC--CCeEEEEecCCc
Q 041769           83 LIATK--NKSILVVGDIDY   99 (204)
Q Consensus        83 ~~~~~--~~~il~iDeid~   99 (204)
                      +....  .+.++++||.-.
T Consensus        98 L~~~~~~~p~llllDEp~~  116 (199)
T cd03283          98 VEKAKKGEPVLFLLDEIFK  116 (199)
T ss_pred             HHhccCCCCeEEEEecccC
Confidence            66666  889999999644

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

>PRK13946 shikimate kinase; Provisional

Probab=97.87  E-value=1.6e-05  Score=61.38  Aligned_cols=34  Identities=26%  Similarity=0.396  Sum_probs=30.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      +..++|.|++|+|||++++.||+.+|.+++..+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~   43 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADT   43 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcCH
Confidence            3459999999999999999999999999887763

>PTZ00301 uridine kinase; Provisional

Probab=97.86  E-value=0.00045  Score=54.53  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.+.|+||+||||+++.|+..+
T Consensus         6 IgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          6 IGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             EEEECCCcCCHHHHHHHHHHHH
Confidence            7799999999999999998766

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.86  E-value=1.9e-05  Score=63.11  Aligned_cols=91  Identities=12%  Similarity=0.189  Sum_probs=55.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------------------------ChHHHH----HHHHh--cCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------------------------ENMELR----NMLIA--TKN   88 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------------------------~~~~~~----~~~~~--~~~   88 (204)
                      -++|.||||+||||+++.||+.+|.+.++++  ++.                        ....+.    +.+..  ...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~~~is~g--dllr~~~~~~t~lg~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~   85 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENLKHINMG--NILREEIKAKTTIGKEIQKVVTSGNLVPDNLVIAIVKDEIAKVTDDC   85 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEECC--hHHHHHhhcCChHHHHHHHHHHcCCcCCHHHHHHHHHHHHHhhcccc
Confidence            3899999999999999999999998776643  210                        011111    11222  112


Q ss_pred             CeEEEEecCCccch--hhhhhccccceeEecCCCCHHHHHHHHHH
Q 041769           89 KSILVVGDIDYLTL--HILLRSSCMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus        89 ~~il~iDeid~~~~--~a~~r~~R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                      ...++||.+-.-..  ..+....+.+..+.+..|.......+..+
T Consensus        86 ~~g~iLDGfPRt~~Qa~~l~~~~~~~~vi~l~~~~~~~~~Rl~~R  130 (229)
T PTZ00088         86 FKGFILDGFPRNLKQCKELGKITNIDLFVNIYLPRNILIKKLLGR  130 (229)
T ss_pred             CceEEEecCCCCHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHcC
Confidence            24578888744311  12223357778888888877665555554

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.85  E-value=1.8e-05  Score=60.09  Aligned_cols=31  Identities=29%  Similarity=0.543  Sum_probs=28.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .++|+|++|+|||++++.||+.+|.+++..+
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            3889999999999999999999999988765

>PF13245 AAA_19: Part of AAA domain

Probab=97.85  E-value=3.1e-05  Score=51.14  Aligned_cols=32  Identities=41%  Similarity=0.662  Sum_probs=23.2

Q ss_pred             eEEECCCCCcHH-HHHHHHHHhc------CCceEEeecC
Q 041769           40 YFLYGPPGTGKS-SLIAAMTNYL------NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT-~la~~la~~~------~~~~~~~~~~   71 (204)
                      +++.|||||||| ++++.++..+      +..+..+...
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            556999999999 6666666666      5566666554

>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=97.85  E-value=2.3e-05  Score=63.96  Aligned_cols=28  Identities=25%  Similarity=0.584  Sum_probs=24.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ...+++.||+|+||||+++++...++..
T Consensus       127 ~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  127 RGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             ceEEEEECCCccccchHHHHHhhhcccc
Confidence            4559999999999999999999998544

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 ....

>PRK06696 uridine kinase; Validated

Probab=97.84  E-value=6.7e-05  Score=59.63  Aligned_cols=37  Identities=14%  Similarity=0.245  Sum_probs=30.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      .-|.+.|+||+||||+++.|+..+   |.+++.+.+.++.
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            348899999999999999999999   6677777766653

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.83  E-value=1.5e-05  Score=72.34  Aligned_cols=95  Identities=19%  Similarity=0.209  Sum_probs=55.6

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEe----ecCCccC---
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL----ELTTFKE---   75 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~----~~~~~~~---   75 (204)
                      .+.|.+.+|+.+  .++.|-+.++...+.+ +..-.++||+|.||||||.|++.+++.++..++.-    +..++..   
T Consensus       287 sIyG~e~VKkAi--lLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav~  364 (682)
T COG1241         287 SIYGHEDVKKAI--LLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAVV  364 (682)
T ss_pred             cccCcHHHHHHH--HHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCceeEEE
Confidence            456777777666  3444433322222111 22224599999999999999999999887776652    1111111   


Q ss_pred             --hHHHHHHHHh----cCCCeEEEEecCCcc
Q 041769           76 --NMELRNMLIA----TKNKSILVVGDIDYL  100 (204)
Q Consensus        76 --~~~~~~~~~~----~~~~~il~iDeid~~  100 (204)
                        ...-.+.+..    .+.+++.+|||+|.+
T Consensus       365 rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm  395 (682)
T COG1241         365 RDKVTGEWVLEAGALVLADGGVCCIDEFDKM  395 (682)
T ss_pred             EccCCCeEEEeCCEEEEecCCEEEEEeccCC
Confidence              1000111111    147899999999987

>PRK02496 adk adenylate kinase; Provisional

Probab=97.83  E-value=1.7e-05  Score=60.99  Aligned_cols=29  Identities=24%  Similarity=0.525  Sum_probs=25.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +++.||||+||||+++.|+..++...+..
T Consensus         4 i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            78999999999999999999998776653

>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=97.82  E-value=3.5e-05  Score=49.80  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=20.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.+.|+||+|||++++.++..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999986

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.

>PRK14528 adenylate kinase; Provisional

Probab=97.82  E-value=1.9e-05  Score=61.04  Aligned_cols=92  Identities=16%  Similarity=0.233  Sum_probs=58.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------------------------ChH----HHHHHHHhcCCCeE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------------------------ENM----ELRNMLIATKNKSI   91 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------------------------~~~----~~~~~~~~~~~~~i   91 (204)
                      +++.||||+||||+++.++..+|.+.+...  ++.                        ...    .+.+.+........
T Consensus         4 i~i~G~pGsGKtt~a~~la~~~~~~~is~~--~~lr~~~~~~~~~g~~~~~~~~~g~lvp~~~~~~~~~~~l~~~~~~~g   81 (186)
T PRK14528          4 IIFMGPPGAGKGTQAKILCERLSIPQISTG--DILREAVKNQTAMGIEAKRYMDAGDLVPDSVVIGIIKDRIREADCKNG   81 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeeeCC--HHHHHHhhcCCHHHHHHHHHHhCCCccCHHHHHHHHHHHHhCcCccCc
Confidence            889999999999999999999987776532  210                        011    11222222223345


Q ss_pred             EEEecCCccc-----hhhhhh--ccccceeEecCCCCHHHHHHHHHHhh
Q 041769           92 LVVGDIDYLT-----LHILLR--SSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus        92 l~iDeid~~~-----~~a~~r--~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                      ++||++..-.     +..++.  ....+..|.+..|.......+..+..
T Consensus        82 ~viDG~Pr~~~qa~~l~~~~~~~~~~~d~vI~Ld~~~~~~~~Rl~~R~~  130 (186)
T PRK14528         82 FLLDGFPRTVEQADALDALLKNEGKSIDKAINLEVPDGELLKRLLGRAE  130 (186)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHhcCcc
Confidence            7889875531     222322  13688888888888877766665543

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.82  E-value=7.4e-05  Score=60.47  Aligned_cols=25  Identities=24%  Similarity=0.533  Sum_probs=22.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+++.||+|+|||++++.+++.+..
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccc
Confidence            3999999999999999999998854

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.

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.82  E-value=1.9e-05  Score=68.04  Aligned_cols=60  Identities=17%  Similarity=0.303  Sum_probs=40.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.++++.||+|||||+++.+++...    |   ...+.+.+-.... .+.+.......+|+|||+..+
T Consensus       209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a~Lf~~L~-~~~lg~v~~~DlLI~DEvgyl  272 (449)
T TIGR02688       209 NYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVAKLFYNIS-TRQIGLVGRWDVVAFDEVATL  272 (449)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHHHHHHHHH-HHHHhhhccCCEEEEEcCCCC
Confidence            4569999999999999999988862    3   2222222211111 144455667889999999997

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.

>TIGR01351 adk adenylate kinases

Probab=97.81  E-value=2e-05  Score=61.97  Aligned_cols=29  Identities=24%  Similarity=0.488  Sum_probs=26.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++++||||+||||+++.||..+|...++.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            78999999999999999999998777654

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.80  E-value=1.6e-05  Score=56.89  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=20.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |+|.|+|||||||+++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999999996

...

>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=97.80  E-value=0.00022  Score=58.31  Aligned_cols=99  Identities=18%  Similarity=0.103  Sum_probs=55.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHh--cCCc---eEEeecCCccCh------------------------HHHHHHHHhc-
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNY--LNFD---VYDLELTTFKEN------------------------MELRNMLIAT-   86 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~--~~~~---~~~~~~~~~~~~------------------------~~~~~~~~~~-   86 (204)
                      ..-+.++|++|+|||++|+.+++.  ....   ++.++.+.....                        ......+... 
T Consensus        19 ~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~L   98 (287)
T PF00931_consen   19 VRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRELL   98 (287)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHHH
T ss_pred             eEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhh
Confidence            345889999999999999999988  3322   233443321110                        1111111111 


Q ss_pred             -CCCeEEEEecCCccchh-----------------------hhhhc-cccceeEecCCCCHHHHHHHHHHhhCC
Q 041769           87 -KNKSILVVGDIDYLTLH-----------------------ILLRS-SCMDMHIHMSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus        87 -~~~~il~iDeid~~~~~-----------------------a~~r~-~R~~~~i~~~~p~~~~~~~i~~~~~~~  135 (204)
                       ..+.+|++|+++....-                       ..... +.....+.+...+.++...++..+...
T Consensus        99 ~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~  172 (287)
T PF00931_consen   99 KDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGR  172 (287)
T ss_dssp             CCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTS
T ss_pred             ccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence             35899999999887110                       00000 111356788888888777777766543

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.

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

Probab=97.80  E-value=3.5e-05  Score=63.17  Aligned_cols=33  Identities=36%  Similarity=0.485  Sum_probs=27.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++++||.||||||||.+|-++++++|..+=.+.
T Consensus        64 GravLlaGppgtGKTAlAlaisqELG~kvPFcp   96 (456)
T KOG1942|consen   64 GRAVLLAGPPGTGKTALALAISQELGPKVPFCP   96 (456)
T ss_pred             CcEEEEecCCCCchhHHHHHHHHHhCCCCCccc
Confidence            577999999999999999999999976443333

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.79  E-value=6.7e-05  Score=57.64  Aligned_cols=28  Identities=25%  Similarity=0.342  Sum_probs=23.6

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+.-+.+.||+|+|||||++.|++...
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3344488999999999999999999874

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.79  E-value=3.3e-06  Score=66.16  Aligned_cols=36  Identities=25%  Similarity=0.529  Sum_probs=26.8

Q ss_pred             HHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           26 KEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        26 ~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+.++.+.+....|  +.+.||+|+||||++|+|...-
T Consensus        15 ~~VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          15 KEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             eEEecCcceeEcCCCEEEEECCCCCCHHHHHHHHHCCc
Confidence            33444445444444  8899999999999999998854

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=97.79  E-value=6.2e-05  Score=70.24  Aligned_cols=28  Identities=29%  Similarity=0.286  Sum_probs=23.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ..++||+|+||||||.+|+++++..+..
T Consensus       492 dihVLLvGDPGTGKSqLAr~Ih~lspR~  519 (915)
T PTZ00111        492 IINVLLCGDPGTAKSQLLHYTHLLSPRS  519 (915)
T ss_pred             CceEEEeCCCCccHHHHHHHHHHhCCcc
Confidence            3469999999999999999999976543

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.79  E-value=2.4e-05  Score=61.79  Aligned_cols=29  Identities=24%  Similarity=0.457  Sum_probs=26.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++++||||+||||+++.||..+|...+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            88999999999999999999999776664

>PRK14527 adenylate kinase; Provisional

Probab=97.78  E-value=2.4e-05  Score=60.67  Aligned_cols=31  Identities=23%  Similarity=0.507  Sum_probs=26.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.-++++||||+||||+++.|+..++...+.
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~~~~is   36 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELGLKKLS   36 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCCCC
Confidence            3448999999999999999999999876554

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.78  E-value=2.7e-05  Score=60.10  Aligned_cols=29  Identities=34%  Similarity=0.557  Sum_probs=25.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .+.|.||+|+||||+++.|++.++..+..
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~~~   32 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQREQTQLLV   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCeEEE
Confidence            48899999999999999999988765544

>smart00072 GuKc Guanylate kinase homologues

Probab=97.78  E-value=0.00012  Score=56.42  Aligned_cols=25  Identities=32%  Similarity=0.623  Sum_probs=22.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +-++|+||||+||+++++.|....+
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4589999999999999999999863

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.78  E-value=8.1e-05  Score=67.58  Aligned_cols=27  Identities=41%  Similarity=0.604  Sum_probs=24.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .+++|+||||||||++++++++.++..
T Consensus        38 ~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        38 RNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            469999999999999999999999765

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

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=97.77  E-value=6.3e-05  Score=61.85  Aligned_cols=67  Identities=18%  Similarity=0.314  Sum_probs=53.5

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHh------cCCceEEeecCCccChHHHHHHHHhc-----------------CCCe
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNY------LNFDVYDLELTTFKENMELRNMLIAT-----------------KNKS   90 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~------~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~   90 (204)
                      +.....+||.||.|.|||.+++-+...      +.-+++.+|+..+.+...+..+|...                 ..++
T Consensus       205 ~rsr~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadgg  284 (531)
T COG4650         205 IRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGG  284 (531)
T ss_pred             hhccCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCc
Confidence            333455999999999999999988653      36689999999998877776666554                 2578


Q ss_pred             EEEEecCCcc
Q 041769           91 ILVVGDIDYL  100 (204)
Q Consensus        91 il~iDeid~~  100 (204)
                      ++|+|||..+
T Consensus       285 mlfldeigel  294 (531)
T COG4650         285 MLFLDEIGEL  294 (531)
T ss_pred             eEehHhhhhc
Confidence            9999999988

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.76  E-value=0.00011  Score=57.48  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=21.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ++|.|+||+||||+++-||+.+.
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHH
Confidence            78999999999999999999993

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.75  E-value=9.9e-05  Score=57.81  Aligned_cols=40  Identities=23%  Similarity=0.395  Sum_probs=32.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.+.-++++||||+|||+++..++...   +..+++++...
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            56666679999999999999998888654   66788888765

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>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=97.75  E-value=5.3e-05  Score=63.68  Aligned_cols=61  Identities=21%  Similarity=0.318  Sum_probs=42.4

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-CceEEeecC
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-FDVYDLELT   71 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-~~~~~~~~~   71 (204)
                      +++|.+++..++.+.+......      ++ ...+-++|.||+|+|||++++.|.+.+. .+++.+..+
T Consensus        62 ~~~G~~~~i~~lV~~fk~AA~g------~~-~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~~  123 (358)
T PF08298_consen   62 EFYGMEETIERLVNYFKSAAQG------LE-ERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKGC  123 (358)
T ss_pred             cccCcHHHHHHHHHHHHHHHhc------cC-ccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecCC
Confidence            7888888888876655533221      11 1234588999999999999999999884 355555433

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>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=97.75  E-value=8.9e-05  Score=54.92  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||++++++.+..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~   52 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEP   52 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCC
Confidence            344889999999999999999998743

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.74  E-value=0.00018  Score=62.70  Aligned_cols=37  Identities=24%  Similarity=0.459  Sum_probs=29.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      +.-++|+|++|+||||++..+|..+   |..+..+++..+
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            4558999999999999999999877   566666665443

>PRK08233 hypothetical protein; Provisional

Probab=97.73  E-value=3.9e-05  Score=58.50  Aligned_cols=30  Identities=20%  Similarity=0.299  Sum_probs=24.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC-CceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN-FDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~-~~~~~~~   69 (204)
                      +.+.|+||+||||+++.|+..++ ..++..+
T Consensus         6 I~I~G~~GsGKtTla~~L~~~l~~~~~~~~d   36 (182)
T PRK08233          6 ITIAAVSGGGKTTLTERLTHKLKNSKALYFD   36 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCCCceEEEC
Confidence            77889999999999999999996 4444443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.73  E-value=0.00016  Score=55.07  Aligned_cols=33  Identities=18%  Similarity=0.194  Sum_probs=27.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      +++.|++|+|||++|..++...+.+++++....
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~   34 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAE   34 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccC
Confidence            689999999999999999988777777765443

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>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=97.73  E-value=8.2e-05  Score=55.69  Aligned_cols=27  Identities=37%  Similarity=0.556  Sum_probs=23.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.-+.+.||+|+|||||+++|++.+..
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~   51 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKP   51 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            345889999999999999999998754

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.72  E-value=0.00011  Score=55.08  Aligned_cols=24  Identities=33%  Similarity=0.696  Sum_probs=21.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+++.|+||+||||++.-++..+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            348999999999999999999887

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

Probab=97.72  E-value=3.5e-05  Score=60.59  Aligned_cols=22  Identities=41%  Similarity=0.815  Sum_probs=17.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .++.||||||||+++..++..+
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            8899999999998766666655

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.72  E-value=3.3e-05  Score=57.13  Aligned_cols=31  Identities=26%  Similarity=0.540  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ..+|+.|-|||||||++..||..++...+.+
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~~~i~i   38 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGLEYIEI   38 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCCceEeh
Confidence            4599999999999999999999998877654

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.71  E-value=4.7e-05  Score=55.68  Aligned_cols=27  Identities=26%  Similarity=0.433  Sum_probs=24.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.-++|.|+.|+||||+++.+++.++.
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            445889999999999999999999975

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.

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

Probab=97.71  E-value=3.6e-05  Score=67.65  Aligned_cols=32  Identities=25%  Similarity=0.570  Sum_probs=28.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +-+||+||+|+||||.++.|+.++|..+....
T Consensus       111 ~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~  142 (634)
T KOG1970|consen  111 RILLLTGPSGCGKSTTVKVLSKELGYQLIEWS  142 (634)
T ss_pred             eEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence            34889999999999999999999999888765

>PLN02200 adenylate kinase family protein

Probab=97.71  E-value=4.6e-05  Score=61.13  Aligned_cols=29  Identities=24%  Similarity=0.510  Sum_probs=25.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+++.|+||+||||+++.|++.+|...+.
T Consensus        45 ii~I~G~PGSGKsT~a~~La~~~g~~his   73 (234)
T PLN02200         45 ITFVLGGPGSGKGTQCEKIVETFGFKHLS   73 (234)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEE
Confidence            47899999999999999999999875443

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.70  E-value=0.00013  Score=55.50  Aligned_cols=37  Identities=27%  Similarity=0.504  Sum_probs=32.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      .-+.|.|.||+||||+|.++.+.+   |..++.+|..+++
T Consensus        24 ~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR   63 (197)
T COG0529          24 AVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVR   63 (197)
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHh
Confidence            347799999999999999999998   8899999887663

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.70  E-value=4.9e-05  Score=56.66  Aligned_cols=31  Identities=35%  Similarity=0.514  Sum_probs=26.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      ++++|+||+||||+++.|++.+   +..++.++.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~   35 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDG   35 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcC
Confidence            6899999999999999999998   666666654

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK04040 adenylate kinase; Provisional

Probab=97.70  E-value=4.7e-05  Score=59.08  Aligned_cols=35  Identities=20%  Similarity=0.318  Sum_probs=26.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      .-++++|+||+||||+++.+++.++..+..++.++
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~~~g~   37 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKIVNFGD   37 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhccCCeEEecch
Confidence            34889999999999999999999942233344444

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.69  E-value=0.00016  Score=57.45  Aligned_cols=34  Identities=24%  Similarity=0.451  Sum_probs=27.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc--------CCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL--------NFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~--------~~~~~~~~~~~   72 (204)
                      ..|+.||||+||||++|-||+.+        +..+..+|-++
T Consensus       139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers  180 (308)
T COG3854         139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS  180 (308)
T ss_pred             eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence            38899999999999999999987        34566666543

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.69  E-value=0.00011  Score=58.32  Aligned_cols=32  Identities=25%  Similarity=0.454  Sum_probs=24.5

Q ss_pred             HHhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           30 RNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        30 ~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ....+....|  +.+.||+|||||||+..++...
T Consensus        22 ~~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          22 KDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             ccceEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            3344444455  8899999999999999998843

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=97.69  E-value=2.9e-05  Score=57.80  Aligned_cols=26  Identities=23%  Similarity=0.522  Sum_probs=22.7

Q ss_pred             EECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           42 LYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        42 l~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.||||+||||+++.||..+|...++
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is   26 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHIS   26 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEE
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceec
Confidence            57999999999999999999865544

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.68  E-value=0.00035  Score=60.88  Aligned_cols=63  Identities=21%  Similarity=0.340  Sum_probs=43.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCcc----------------------ChHHHHHHHHhcCCCe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFK----------------------ENMELRNMLIATKNKS   90 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~   90 (204)
                      ..++|+||+|+||||++..||..+     +..+..+++...+                      ...++...+.......
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~D  301 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCD  301 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCC
Confidence            458899999999999988887654     4567777766532                      1123344444455678


Q ss_pred             EEEEecCCcc
Q 041769           91 ILVVGDIDYL  100 (204)
Q Consensus        91 il~iDeid~~  100 (204)
                      +|+||.....
T Consensus       302 lVlIDt~G~~  311 (424)
T PRK05703        302 VILIDTAGRS  311 (424)
T ss_pred             EEEEeCCCCC
Confidence            9999988665

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=97.67  E-value=0.00071  Score=58.01  Aligned_cols=27  Identities=30%  Similarity=0.360  Sum_probs=24.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -.|+|+.|+.|+||||++|+|+..++.
T Consensus        38 iggvLI~G~kGtaKSt~~Rala~LLp~   64 (423)
T COG1239          38 IGGALIAGEKGTAKSTLARALADLLPE   64 (423)
T ss_pred             cceeEEecCCCccHHHHHHHHHHhCCc
Confidence            357999999999999999999999953

>PRK01184 hypothetical protein; Provisional

Probab=97.67  E-value=4.6e-05  Score=58.57  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=24.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++++||||+||||+++ +++.+|.+++..
T Consensus         4 i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          4 IGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            7899999999999987 788899877664

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.66  E-value=0.00032  Score=57.32  Aligned_cols=24  Identities=29%  Similarity=0.542  Sum_probs=21.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+++.||+|+||||+++++...+.
T Consensus        82 lilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhC
Confidence            388999999999999999987774

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.66  E-value=0.00014  Score=62.26  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=21.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+++||||+|||+|++.|++...
T Consensus       172 ~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        172 GLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             EEEeCCCCCChhHHHHHHHHHHH
Confidence            89999999999999999998773

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=97.66  E-value=8.9e-05  Score=69.32  Aligned_cols=61  Identities=25%  Similarity=0.460  Sum_probs=50.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcC--------------------CCeEEEEecCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATK--------------------NKSILVVGDIDY   99 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~il~iDeid~   99 (204)
                      ++++||||+|||+.+.++|..+|..++..|.+..++...+...+..+.                    ...+|++||+|.
T Consensus       360 ~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~  439 (871)
T KOG1968|consen  360 LLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDG  439 (871)
T ss_pred             HHhcCCCCCCchhhHhhhhhhcccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEecccc
Confidence            589999999999999999999999999999998876655554444431                    245999999999


Q ss_pred             c
Q 041769          100 L  100 (204)
Q Consensus       100 ~  100 (204)
                      +
T Consensus       440 ~  440 (871)
T KOG1968|consen  440 M  440 (871)
T ss_pred             c
Confidence            8

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.65  E-value=4.8e-05  Score=62.91  Aligned_cols=29  Identities=21%  Similarity=0.235  Sum_probs=24.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-CCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-NFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-~~~~~~   67 (204)
                      -+++.|+|||||||+++.|++.+ +..++.
T Consensus         4 liil~G~pGSGKSTla~~L~~~~~~~~~l~   33 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKNPKAVNVN   33 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHCCCCEEEe
Confidence            47889999999999999999998 544444

>PRK14526 adenylate kinase; Provisional

Probab=97.65  E-value=5.3e-05  Score=59.83  Aligned_cols=28  Identities=32%  Similarity=0.688  Sum_probs=24.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++|+||||+||||+++.|++.++...+.
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            7899999999999999999998876544

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=97.65  E-value=5.3e-05  Score=57.18  Aligned_cols=29  Identities=24%  Similarity=0.581  Sum_probs=26.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.++|++|+|||++++.+++.+|.+++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            78999999999999999999999887664

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.64  E-value=4.2e-05  Score=59.07  Aligned_cols=26  Identities=23%  Similarity=0.635  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +..+++.||+|+||||+++++++.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            44599999999999999999999774

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.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.64  E-value=0.0025  Score=55.89  Aligned_cols=28  Identities=29%  Similarity=0.479  Sum_probs=23.6

Q ss_pred             Cce-eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           37 KHS-YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        37 ~~g-~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      |.| +|+.||.|+||||++.++.+.++.+
T Consensus       257 p~GliLvTGPTGSGKTTTLY~~L~~ln~~  285 (500)
T COG2804         257 PQGLILVTGPTGSGKTTTLYAALSELNTP  285 (500)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence            455 7788999999999999999988543

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.63  E-value=3.5e-05  Score=61.64  Aligned_cols=37  Identities=19%  Similarity=0.372  Sum_probs=28.6

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .++++++....|  +-+.||+|||||||++.+|+.....
T Consensus        18 vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAGL~~p~   56 (248)
T COG1116          18 VLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPT   56 (248)
T ss_pred             EeccceeEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            344555555555  8899999999999999999987443

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=97.63  E-value=6.1e-05  Score=59.09  Aligned_cols=31  Identities=35%  Similarity=0.623  Sum_probs=25.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      ++++||+|||||.++-++|+.+|.+++.+|-
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Dr   34 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKTGAPVISLDR   34 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH--EEEEE-S
T ss_pred             EEEECCCCCChhHHHHHHHHHhCCCEEEecc
Confidence            7899999999999999999999999999873

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.63  E-value=5.1e-05  Score=57.20  Aligned_cols=26  Identities=35%  Similarity=0.608  Sum_probs=20.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      |.|+|+||||||||++.|+.. |.+++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence            789999999999999999998 76655

>cd01394 radB RadB

Probab=97.62  E-value=0.00017  Score=56.95  Aligned_cols=39  Identities=26%  Similarity=0.406  Sum_probs=31.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-++++|+||+|||+++..+|...   +.++++++..
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e   56 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTE   56 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECC
Confidence            56666669999999999999999998765   5677777654

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK04182 cytidylate kinase; Provisional

Probab=97.62  E-value=6.2e-05  Score=57.22  Aligned_cols=29  Identities=24%  Similarity=0.520  Sum_probs=26.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.+.|++|+||||+++.||..+|.+++..
T Consensus         3 I~i~G~~GsGKstia~~la~~lg~~~id~   31 (180)
T PRK04182          3 ITISGPPGSGKTTVARLLAEKLGLKHVSA   31 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEecH
Confidence            78999999999999999999999887763

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.00023  Score=56.37  Aligned_cols=39  Identities=28%  Similarity=0.478  Sum_probs=28.2

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      +.++..++..+.|  -.+.||+|+|||||+.+|++.-+..+
T Consensus        18 eILkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~V   58 (251)
T COG0396          18 EILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEV   58 (251)
T ss_pred             hhhcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCceE
Confidence            4445555544454  56889999999999999999655443

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.62  E-value=0.00014  Score=62.23  Aligned_cols=38  Identities=26%  Similarity=0.298  Sum_probs=29.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      |+..+.-++++|+||+|||+++..++..+   +.++++++.
T Consensus        78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~  118 (372)
T cd01121          78 GLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSG  118 (372)
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence            45555568999999999999999988765   346766654

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.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.61  E-value=8.5e-05  Score=67.55  Aligned_cols=47  Identities=28%  Similarity=0.408  Sum_probs=33.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |+++.|+++.+..+...+.               .+++++|+||||+|||++++++++.++.
T Consensus        30 ~~~vigq~~a~~~L~~~~~---------------~~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         30 IDQVIGQEHAVEVIKKAAK---------------QRRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             HHHcCChHHHHHHHHHHHH---------------hCCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            5667777655554433222               1246999999999999999999999864

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.61  E-value=9.2e-05  Score=58.11  Aligned_cols=34  Identities=15%  Similarity=0.180  Sum_probs=26.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC-CceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN-FDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~-~~~~~~~~~   71 (204)
                      .-+.+.|+||+|||||++.|++.++ ..+..++..
T Consensus         7 ~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D   41 (209)
T PRK05480          7 IIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQD   41 (209)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCC
Confidence            3488999999999999999999983 344444443

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.61  E-value=0.00015  Score=63.48  Aligned_cols=39  Identities=26%  Similarity=0.286  Sum_probs=31.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-++++|+||+|||+|+..++...   +.++++++..
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~E  117 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGE  117 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcc
Confidence            46666668999999999999999998866   5677777653

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=97.61  E-value=0.00013  Score=63.85  Aligned_cols=95  Identities=17%  Similarity=0.268  Sum_probs=53.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHH-HHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEee----cCCccC---
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKE-FYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE----LTTFKE---   75 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~----~~~~~~---   75 (204)
                      +++|..++|+.+  ....|-+.++ +-+.+.......+||.|.|||.||.|++-+-+-.+..++..-    +.++..   
T Consensus       332 SIfG~~DiKkAi--aClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTASV~  409 (729)
T KOG0481|consen  332 SIFGHEDIKKAI--ACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVI  409 (729)
T ss_pred             hhcCchhHHHHH--HHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCcccccceeeEE
Confidence            356676777666  2222333222 222222233345999999999999999998887766665521    111110   


Q ss_pred             -hHHHHHHH-----HhcCCCeEEEEecCCcc
Q 041769           76 -NMELRNML-----IATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 -~~~~~~~~-----~~~~~~~il~iDeid~~  100 (204)
                       +..-++..     .-++.++|++|||+|.+
T Consensus       410 RD~~tReFylEGGAMVLADgGVvCIDEFDKM  440 (729)
T KOG0481|consen  410 RDPSTREFYLEGGAMVLADGGVVCIDEFDKM  440 (729)
T ss_pred             ecCCcceEEEecceEEEecCCEEEeehhhcc
Confidence             00001110     01246899999999999

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.61  E-value=0.00014  Score=57.51  Aligned_cols=22  Identities=23%  Similarity=0.401  Sum_probs=20.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHH
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +.++|+||+|+|||++++.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            5589999999999999999983

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 sliding c

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

Probab=97.60  E-value=7.5e-05  Score=64.40  Aligned_cols=25  Identities=28%  Similarity=0.671  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..|+|+.||||.||||||+++|.-+
T Consensus       263 aeGILIAG~PGaGKsTFaqAlAefy  287 (604)
T COG1855         263 AEGILIAGAPGAGKSTFAQALAEFY  287 (604)
T ss_pred             hcceEEecCCCCChhHHHHHHHHHH
Confidence            3689999999999999999999987

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.60  E-value=5.5e-05  Score=57.82  Aligned_cols=24  Identities=29%  Similarity=0.535  Sum_probs=21.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +++.||||+||||++++|+..++.
T Consensus         4 ~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         4 IYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCc
Confidence            789999999999999999998753

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.60  E-value=9.2e-05  Score=57.57  Aligned_cols=31  Identities=19%  Similarity=0.261  Sum_probs=24.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC-CceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN-FDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~-~~~~~~~~   70 (204)
                      +.+.||+|+||||++++|++.++ ..+..+.+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~   33 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQ   33 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCCeEEEEe
Confidence            67899999999999999999872 33444433

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.60  E-value=0.00054  Score=58.84  Aligned_cols=64  Identities=17%  Similarity=0.216  Sum_probs=42.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc----------------------ChHHHHHHHHhcC---C
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK----------------------ENMELRNMLIATK---N   88 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~---~   88 (204)
                      ++-++|+||+|+||||++..||..+   |..+..+++...+                      ....+.+.+....   .
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            3458999999999999999999877   4566666654432                      1123333333332   3


Q ss_pred             CeEEEEecCCcc
Q 041769           89 KSILVVGDIDYL  100 (204)
Q Consensus        89 ~~il~iDeid~~  100 (204)
                      ..+|+||-....
T Consensus       321 ~DvVLIDTaGRs  332 (436)
T PRK11889        321 VDYILIDTAGKN  332 (436)
T ss_pred             CCEEEEeCcccc
Confidence            468888888776

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.60  E-value=7.4e-05  Score=60.34  Aligned_cols=32  Identities=38%  Similarity=0.528  Sum_probs=26.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ++|+|+||+||||+++.+++.+   +.+++.++..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D   36 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTD   36 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccH
Confidence            6899999999999999999988   4566666543

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.59  E-value=5.2e-05  Score=57.46  Aligned_cols=29  Identities=28%  Similarity=0.586  Sum_probs=26.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.+.|.|||||||+++.|+ .+|..++.++
T Consensus         3 I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           3 IAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             EEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            7899999999999999999 8988887754

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.59  E-value=7.7e-05  Score=56.01  Aligned_cols=36  Identities=31%  Similarity=0.523  Sum_probs=30.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      -+.|.|.||+||||+|++|.+.+   |.+++.++...+.
T Consensus         4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR   42 (156)
T PF01583_consen    4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLR   42 (156)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchh
Confidence            37899999999999999999988   7889998876553

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=97.59  E-value=0.00026  Score=55.20  Aligned_cols=37  Identities=24%  Similarity=0.296  Sum_probs=28.8

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..++..+....|  +.+.||+|+||||++|.||..+.+
T Consensus        16 ~AvrdVSF~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P   54 (245)
T COG4555          16 QAVRDVSFEAEEGEITGLLGENGAGKTTLLRMIATLLIP   54 (245)
T ss_pred             hhhhheeEEeccceEEEEEcCCCCCchhHHHHHHHhccC
Confidence            3556666655555  789999999999999999996643

>PRK04296 thymidine kinase; Provisional

Probab=97.59  E-value=0.00035  Score=54.20  Aligned_cols=30  Identities=23%  Similarity=0.398  Sum_probs=24.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~   69 (204)
                      .+++||+|+|||+++..++..+   +..++.+.
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k   37 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK   37 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            6889999999999888887766   56666553

>TIGR00235 udk uridine kinase

Probab=97.58  E-value=8.9e-05  Score=58.19  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.+.||+|+||||++++|++.++.
T Consensus         9 i~I~G~sGsGKSTl~~~l~~~l~~   32 (207)
T TIGR00235         9 IGIGGGSGSGKTTVARKIYEQLGK   32 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcc
Confidence            779999999999999999998763

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd03243 ABC_MutS_homologs 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

Probab=97.57  E-value=0.00025  Score=55.40  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +.-+++.||+|+||||+++.++.
T Consensus        29 ~~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          29 GRLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             CeEEEEECCCCCccHHHHHHHHH
Confidence            34489999999999999999994

Members of the MutS family also possess 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 sliding clamps, and recognition of specific DNA stru

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.57  E-value=0.00011  Score=56.03  Aligned_cols=34  Identities=24%  Similarity=0.348  Sum_probs=26.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC---CceEEeec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLEL   70 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~   70 (204)
                      +.-++|.|+||+||||+++.+++.+.   ..++.++.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~   43 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDG   43 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEec
Confidence            34488999999999999999999885   33555544

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=97.57  E-value=9e-05  Score=57.85  Aligned_cols=39  Identities=21%  Similarity=0.364  Sum_probs=30.3

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhc-CCceEEeecCCcc
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYL-NFDVYDLELTTFK   74 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~-~~~~~~~~~~~~~   74 (204)
                      .|.-+++.|+||+|||+++..+...+ +..++.++...+.
T Consensus        14 ~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r   53 (199)
T PF06414_consen   14 KPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFR   53 (199)
T ss_dssp             S-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGG
T ss_pred             CCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHH
Confidence            35568899999999999999999998 7888888887764

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>TIGR00767 rho transcription termination factor Rho

Probab=97.56  E-value=0.00018  Score=61.81  Aligned_cols=23  Identities=22%  Similarity=0.527  Sum_probs=21.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ++++||||+|||++++.+++.+.
T Consensus       171 ~~IvG~~g~GKTtL~~~i~~~I~  193 (415)
T TIGR00767       171 GLIVAPPKAGKTVLLQKIAQAIT  193 (415)
T ss_pred             EEEECCCCCChhHHHHHHHHhhc
Confidence            89999999999999999999864

Members of this family differ in the specificity of RNA binding.

>PRK14529 adenylate kinase; Provisional

Probab=97.56  E-value=5.4e-05  Score=60.25  Aligned_cols=27  Identities=22%  Similarity=0.482  Sum_probs=24.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      ++|.||||+||||.++.|+..++...+
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~i   29 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHI   29 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence            789999999999999999999987655

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=97.56  E-value=0.00015  Score=54.10  Aligned_cols=46  Identities=20%  Similarity=0.291  Sum_probs=35.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIA   85 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (204)
                      ..+++.|++|+||||++++++.++++.++.  ..++....+..++-..
T Consensus        13 ~~i~vmGvsGsGKSTigk~L~~~l~~~F~d--gDd~Hp~~NveKM~~G   58 (191)
T KOG3354|consen   13 YVIVVMGVSGSGKSTIGKALSEELGLKFID--GDDLHPPANVEKMTQG   58 (191)
T ss_pred             eeEEEEecCCCChhhHHHHHHHHhCCcccc--cccCCCHHHHHHHhcC
Confidence            348899999999999999999999988755  5556566665555433

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.55  E-value=0.00014  Score=57.68  Aligned_cols=39  Identities=23%  Similarity=0.394  Sum_probs=32.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-++++||||+|||+++..++...   +.++++++..
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            56666668999999999999999998755   6778888776

>PF13479 AAA_24: AAA domain

Probab=97.54  E-value=6.2e-05  Score=59.46  Aligned_cols=57  Identities=23%  Similarity=0.479  Sum_probs=36.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeec--CC-------------ccChHHHHHHHHh----cCCCeEEEEecCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL--TT-------------FKENMELRNMLIA----TKNKSILVVGDIDY   99 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~--~~-------------~~~~~~~~~~~~~----~~~~~il~iDeid~   99 (204)
                      .+++||+||+|||+++..+    +.++ .++.  +.             +.+-.++.+.+..    ......|+||.++.
T Consensus         5 ~~lIyG~~G~GKTt~a~~~----~k~l-~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsis~   79 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL----PKPL-FIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSISW   79 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC----CCeE-EEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECHHH
Confidence            4899999999999999887    2222 2222  21             1122444454433    24678999999887


Q ss_pred             c
Q 041769          100 L  100 (204)
Q Consensus       100 ~  100 (204)
                      +
T Consensus        80 ~   80 (213)
T PF13479_consen   80 L   80 (213)
T ss_pred             H
Confidence            6

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.54  E-value=0.00012  Score=58.24  Aligned_cols=34  Identities=21%  Similarity=0.209  Sum_probs=26.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTF   73 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~   73 (204)
                      +.+.||||+||||+++.|++.+.     ..+..+.+.++
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f   40 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGF   40 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCcc
Confidence            56889999999999999999883     34555555543

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.54  E-value=9.8e-05  Score=46.60  Aligned_cols=23  Identities=39%  Similarity=0.720  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+|+||+|+||||++-|+.-.+
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            38999999999999999988765

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.54  E-value=0.00013  Score=55.90  Aligned_cols=32  Identities=25%  Similarity=0.253  Sum_probs=25.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ++++||||+|||+++..++...   |.+++++++.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e   36 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLE   36 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence            6899999999999998876654   6677777654

A related protein is found in archaea.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.54  E-value=0.00013  Score=55.55  Aligned_cols=34  Identities=24%  Similarity=0.410  Sum_probs=27.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .-+.|.|+||+||||+++.|++.+   +..+..++..
T Consensus         5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D   41 (175)
T PRK00889          5 VTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGD   41 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCc
Confidence            348899999999999999999988   4456666554

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.53  E-value=0.00011  Score=56.54  Aligned_cols=34  Identities=24%  Similarity=0.475  Sum_probs=27.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      +.+.|+||+||||+++.|+..+   +.++..++..++
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf   38 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDY   38 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhc
Confidence            6789999999999999999997   455666655443

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.53  E-value=0.00016  Score=57.73  Aligned_cols=40  Identities=25%  Similarity=0.304  Sum_probs=32.7

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.+..++++|+||+|||+++..++...   |..+++++...
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            67777779999999999999999997653   67888877643

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.53  E-value=7.3e-05  Score=60.33  Aligned_cols=38  Identities=26%  Similarity=0.429  Sum_probs=28.3

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .+.++.+....|  +.+.||+|+|||||++++.+.+.+.-
T Consensus        19 vl~~i~l~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~   58 (254)
T COG1121          19 VLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSS   58 (254)
T ss_pred             eeeccEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCc
Confidence            444455444444  77999999999999999999765443

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=97.53  E-value=0.00019  Score=55.06  Aligned_cols=26  Identities=31%  Similarity=0.525  Sum_probs=23.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.+.|++|+||||+++++++.++..
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~~l~~~   30 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            37899999999999999999998764

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.52  E-value=7.1e-05  Score=58.16  Aligned_cols=23  Identities=35%  Similarity=0.632  Sum_probs=21.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      |.+.||||+||||+|+.|+..++
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67899999999999999999996

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.52  E-value=0.00015  Score=56.68  Aligned_cols=36  Identities=31%  Similarity=0.440  Sum_probs=26.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      +-++|+||+|+||||.+--||..+   +..+..+++...
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~   40 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTY   40 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTS
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCC
Confidence            458899999999999888888776   566666665554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.51  E-value=0.00078  Score=55.86  Aligned_cols=40  Identities=23%  Similarity=0.347  Sum_probs=29.5

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +++++.+..+.|  +.|.||+|+||||++++|++.....--.
T Consensus        20 ~l~~vs~~i~~Gei~gllG~NGAGKTTllk~l~gl~~p~~G~   61 (293)
T COG1131          20 ALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGE   61 (293)
T ss_pred             EEeceeEEEcCCeEEEEECCCCCCHHHHHHHHhCCcCCCceE
Confidence            344445544555  8899999999999999999977554333

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.51  E-value=0.00013  Score=57.88  Aligned_cols=40  Identities=23%  Similarity=0.333  Sum_probs=30.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~   72 (204)
                      |++.+.-+++.||||+|||+++..++...    |.++++++...
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            67777779999999999999988766544    78888887643

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 ....

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=97.51  E-value=0.00012  Score=57.27  Aligned_cols=28  Identities=29%  Similarity=0.477  Sum_probs=24.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+++.|+||+||||+++.++..++...
T Consensus         4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            3488999999999999999999988754

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.50  E-value=0.00014  Score=59.17  Aligned_cols=39  Identities=18%  Similarity=0.120  Sum_probs=30.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-++++||||+|||+++..++...   |.++++++..
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            56666679999999999999988876643   6677777764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.50  E-value=0.00011  Score=54.03  Aligned_cols=25  Identities=32%  Similarity=0.591  Sum_probs=22.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +.+.||+|+|||++++.|++.++..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCcc
Confidence            6789999999999999999987543

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.50  E-value=0.00036  Score=57.24  Aligned_cols=37  Identities=30%  Similarity=0.360  Sum_probs=29.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      +.-++|+||+|+||||++..+|..+   |..+..+++...
T Consensus        72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~  111 (272)
T TIGR00064        72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTF  111 (272)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCC
Confidence            3458889999999999999998877   667777766544

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.50  E-value=0.00018  Score=58.43  Aligned_cols=40  Identities=23%  Similarity=0.265  Sum_probs=32.9

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.+..++++|+||||||+|+..++...   |.+++.++...
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            57777779999999999999888777665   67788887765

>PLN02674 adenylate kinase

Probab=97.50  E-value=0.00013  Score=58.82  Aligned_cols=30  Identities=23%  Similarity=0.437  Sum_probs=26.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ..++|.||||+||||.++.||+.++...++
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~~~~his   61 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEYCLCHLA   61 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcCCcEEc
Confidence            459999999999999999999999865544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.49  E-value=0.00023  Score=59.64  Aligned_cols=35  Identities=20%  Similarity=0.225  Sum_probs=27.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      .-++|+||||+||||++..||..+   +..+..++...
T Consensus       115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~  152 (318)
T PRK10416        115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDT  152 (318)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCc
Confidence            348899999999999999999987   45566655543

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=97.48  E-value=0.0067  Score=50.20  Aligned_cols=64  Identities=16%  Similarity=0.279  Sum_probs=42.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC------------------------CceEEeecCC-ccChHHHHHHHHhcC----
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN------------------------FDVYDLELTT-FKENMELRNMLIATK----   87 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~------------------------~~~~~~~~~~-~~~~~~~~~~~~~~~----   87 (204)
                      +.++||+||  +||+++|+.+|+.+-                        ++++.+...+ ......++++.....    
T Consensus        24 ~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~p~  101 (290)
T PRK07276         24 NHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQSGY  101 (290)
T ss_pred             ceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhCcc
Confidence            566999996  689999999998772                        2233333321 122355666554442    


Q ss_pred             --CCeEEEEecCCccch
Q 041769           88 --NKSILVVGDIDYLTL  102 (204)
Q Consensus        88 --~~~il~iDeid~~~~  102 (204)
                        ...|++||++|.++.
T Consensus       102 ~~~~kV~II~~ad~m~~  118 (290)
T PRK07276        102 EGKQQVFIIKDADKMHV  118 (290)
T ss_pred             cCCcEEEEeehhhhcCH
Confidence              457999999999954

>PLN02165 adenylate isopentenyltransferase

Probab=97.48  E-value=0.00013  Score=61.28  Aligned_cols=31  Identities=19%  Similarity=0.408  Sum_probs=26.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -++|.||+|+|||+++..||+.++..++..|
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l~~eIIsaD   75 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRFPSEIINSD   75 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHcCCceecCC
Confidence            4889999999999999999999987665543

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.48  E-value=0.00068  Score=55.98  Aligned_cols=67  Identities=13%  Similarity=0.110  Sum_probs=45.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC----------------CceEEeecCCc---cChHHHHHHHHhc------CCCeE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN----------------FDVYDLELTTF---KENMELRNMLIAT------KNKSI   91 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~----------------~~~~~~~~~~~---~~~~~~~~~~~~~------~~~~i   91 (204)
                      +.++||+||+|+||+.+|.++|+.+-                ++++.+.+..-   .+...++++....      ....+
T Consensus        19 ~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv   98 (290)
T PRK05917         19 PSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKI   98 (290)
T ss_pred             CeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceE
Confidence            45699999999999999999999883                23444433221   2334455544443      24579


Q ss_pred             EEEecCCccchh
Q 041769           92 LVVGDIDYLTLH  103 (204)
Q Consensus        92 l~iDeid~~~~~  103 (204)
                      ++||++|.++..
T Consensus        99 ~ii~~ad~mt~~  110 (290)
T PRK05917         99 YIIHEADRMTLD  110 (290)
T ss_pred             EEEechhhcCHH
Confidence            999999999543

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.48  E-value=0.00041  Score=55.22  Aligned_cols=40  Identities=15%  Similarity=0.171  Sum_probs=29.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---------CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---------NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---------~~~~~~~~~~~   72 (204)
                      |++.+.-+.++||||+|||+++..++...         +..+++++..+
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            45555668999999999999999998553         24566666544

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 .

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.48  E-value=0.0002  Score=57.45  Aligned_cols=40  Identities=25%  Similarity=0.258  Sum_probs=31.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHh---cCCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNY---LNFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~---~~~~~~~~~~~~   72 (204)
                      |++.+..++++||||+|||+++..++..   -|.++++++...
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            6777777999999999999998766554   267787777653

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.47  E-value=0.00036  Score=59.44  Aligned_cols=23  Identities=22%  Similarity=0.491  Sum_probs=21.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+++||||+|||++++.+++.+.
T Consensus       136 ~LIvG~pGtGKTTLl~~la~~i~  158 (380)
T PRK12608        136 GLIVAPPRAGKTVLLQQIAAAVA  158 (380)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999999773

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=97.47  E-value=0.00013  Score=55.90  Aligned_cols=29  Identities=31%  Similarity=0.426  Sum_probs=25.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.++|++|+||||+++.+++ +|.+++..+
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D   30 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDAD   30 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEecC
Confidence            67999999999999999999 787776654

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PLN02199 shikimate kinase

Probab=97.47  E-value=0.00014  Score=59.98  Aligned_cols=33  Identities=27%  Similarity=0.546  Sum_probs=30.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +..++|.|.+|+|||++++.+|+.+|.+++..|
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD  134 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCD  134 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehH
Confidence            456999999999999999999999999998876

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.47  E-value=0.00023  Score=58.27  Aligned_cols=61  Identities=21%  Similarity=0.396  Sum_probs=33.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc----------ChHHHHHH----HHh-cCCCeEEEEecCCcc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK----------ENMELRNM----LIA-TKNKSILVVGDIDYL  100 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~----------~~~~~~~~----~~~-~~~~~il~iDeid~~  100 (204)
                      ++++|.||+|||++++.|+..+   +..+..++...+.          .....+..    +.. .....++++|+...+
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls~~~iVI~Dd~nYi   82 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALSKDTIVILDDNNYI   82 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHTT-SEEEE-S---S
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhccCeEEEEeCCchH
Confidence            7899999999999999999986   5666666533221          11222222    222 246689999999987

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK04328 hypothetical protein; Provisional

Probab=97.46  E-value=0.00067  Score=54.88  Aligned_cols=40  Identities=25%  Similarity=0.195  Sum_probs=31.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.+..++++||||+|||+|+..++...   |.+.++++...
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            57777779999999999999988766542   66777777654

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.46  E-value=5.6e-05  Score=55.02  Aligned_cols=29  Identities=31%  Similarity=0.429  Sum_probs=24.2

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ..+..+.++|++|+|||||+++|++....
T Consensus         9 ~~g~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen    9 KPGEIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             cCCCEEEEEccCCCccccceeeecccccc
Confidence            33455899999999999999999997643

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 ....

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=97.45  E-value=8.1e-05  Score=66.37  Aligned_cols=62  Identities=21%  Similarity=0.288  Sum_probs=41.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe---------ecCCccChHHHHHHHHhc----CCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL---------ELTTFKENMELRNMLIAT----KNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~  100 (204)
                      ++||+|.||||||.+++.+++-.+..++.-         .+......-.-.+.+++-    +..++-+|||+|++
T Consensus       484 nvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLADkGvClIDEFDKM  558 (854)
T KOG0477|consen  484 NVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLADKGVCLIDEFDKM  558 (854)
T ss_pred             eEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEccCceEEeehhhhh
Confidence            499999999999999999999877666542         111111111112333332    46788899999999

>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=97.45  E-value=0.00014  Score=57.41  Aligned_cols=36  Identities=22%  Similarity=0.352  Sum_probs=27.0

Q ss_pred             HHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           29 YRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        29 ~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +.++.+....  .+.+.||+|+|||||+++|++.+...
T Consensus        20 l~~~s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~   57 (218)
T cd03255          20 LKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRPT   57 (218)
T ss_pred             EeeeEEEEcCCCEEEEEcCCCCCHHHHHHHHhCCcCCC
Confidence            4444443333  48899999999999999999987543

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.45  E-value=0.0001  Score=56.32  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ++|.||+|+||||+++.|++..+.
T Consensus         4 i~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         4 IVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHccCcc
Confidence            789999999999999999997643

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.44  E-value=0.00014  Score=56.74  Aligned_cols=26  Identities=35%  Similarity=0.469  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-+.|+||+|+|||++++.|++.++
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            34488999999999999999999875

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.44  E-value=0.00011  Score=60.98  Aligned_cols=25  Identities=24%  Similarity=0.518  Sum_probs=22.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.+++++||+|+||||+++++++.+
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4569999999999999999999986

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.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.43  E-value=0.00032  Score=54.79  Aligned_cols=20  Identities=20%  Similarity=0.441  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMT   58 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la   58 (204)
                      .++|.||+|+||||+++.++
T Consensus        30 ~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          30 VLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             EEEEECCCCCChHHHHHHHH
Confidence            49999999999999999998

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 also possess 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 sliding clamps, a

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.43  E-value=0.00061  Score=54.22  Aligned_cols=63  Identities=19%  Similarity=0.208  Sum_probs=41.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CCce------------EEeecC---Ccc--------ChHHHHHHHHhcCCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NFDV------------YDLELT---TFK--------ENMELRNMLIATKNK   89 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~~~------------~~~~~~---~~~--------~~~~~~~~~~~~~~~   89 (204)
                      .-+++.||+|+|||++++.++...     |..+            +...+.   ++.        .-.++..++.....+
T Consensus        32 ~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~~  111 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNCTSR  111 (222)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhCCCC
Confidence            348899999999999999999822     2111            001111   111        113456667777789


Q ss_pred             eEEEEecCCcc
Q 041769           90 SILVVGDIDYL  100 (204)
Q Consensus        90 ~il~iDeid~~  100 (204)
                      .++++||+.+-
T Consensus       112 sLvllDE~~~g  122 (222)
T cd03287         112 SLVILDELGRG  122 (222)
T ss_pred             eEEEEccCCCC
Confidence            99999998654

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 sliding c

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=97.43  E-value=0.00015  Score=56.50  Aligned_cols=30  Identities=20%  Similarity=0.215  Sum_probs=26.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.++|++|+|||++++.++..+|.+++..+
T Consensus         4 i~itG~~gsGKst~~~~l~~~~g~~~i~~D   33 (195)
T PRK14730          4 IGLTGGIASGKSTVGNYLAQQKGIPILDAD   33 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCeEeeCc
Confidence            789999999999999999998888877644

>PRK05973 replicative DNA helicase; Provisional

Probab=97.43  E-value=0.00024  Score=57.00  Aligned_cols=39  Identities=18%  Similarity=0.020  Sum_probs=29.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-+++.|+||+|||+++-.++...   |.+++++++.
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlE  101 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLE  101 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence            45555669999999999999888776655   7677666543

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=97.42  E-value=6.3e-05  Score=57.84  Aligned_cols=42  Identities=19%  Similarity=0.443  Sum_probs=32.2

Q ss_pred             HHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           26 KEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        26 ~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ...|.++.+....|  +.+.||+|+|||||+|.||+.+.+.--.
T Consensus        15 ~~lf~~L~f~l~~Ge~~~i~G~NG~GKTtLLRilaGLl~p~~G~   58 (209)
T COG4133          15 RTLFSDLSFTLNAGEALQITGPNGAGKTTLLRILAGLLRPDAGE   58 (209)
T ss_pred             ceeecceeEEEcCCCEEEEECCCCCcHHHHHHHHHcccCCCCCe
Confidence            34566667655554  8899999999999999999988654433

>PLN02459 probable adenylate kinase

Probab=97.42  E-value=0.0002  Score=58.14  Aligned_cols=91  Identities=13%  Similarity=0.208  Sum_probs=53.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc------------------------cChHHHHHH----HHhc--CC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF------------------------KENMELRNM----LIAT--KN   88 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~------------------------~~~~~~~~~----~~~~--~~   88 (204)
                      .++|.||||+||||+++.|++.++...++.  .++                        .....+..+    +...  ..
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~--gdllR~ei~~~t~lg~~i~~~~~~G~lVPdeiv~~ll~~~l~~~~~~~  108 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPHIAT--GDLVREEIKSSGPLGAQLKEIVNQGKLVPDEIIFSLLSKRLEAGEEEG  108 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeC--cHHHHHHHhccchhHHHHHHHHHcCCccCHHHHHHHHHHHHhcccccC
Confidence            488899999999999999999998765543  221                        111111122    2211  12


Q ss_pred             CeEEEEecCCccchh--hhhhccccceeEecCCCCHHHHHHHHHH
Q 041769           89 KSILVVGDIDYLTLH--ILLRSSCMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus        89 ~~il~iDeid~~~~~--a~~r~~R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                      ..-++||.+-.-..-  .+.....++..|.+..|+......+..+
T Consensus       109 ~~g~iLDGFPRt~~Qa~~Le~~~~id~Vi~L~v~d~~l~~Rl~gR  153 (261)
T PLN02459        109 ESGFILDGFPRTVRQAEILEGVTDIDLVVNLKLREEVLVEKCLGR  153 (261)
T ss_pred             CceEEEeCCCCCHHHHHHHHhcCCCCEEEEEECCHHHHHHHhhcc
Confidence            345888888775111  2222224677778887776665555444

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.42  E-value=0.00025  Score=63.37  Aligned_cols=37  Identities=27%  Similarity=0.394  Sum_probs=27.8

Q ss_pred             HHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           28 FYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        28 ~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .++++.+..+.  -+.++||+|+||||+++.+++.+...
T Consensus       350 vL~~isl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~p~  388 (529)
T TIGR02868       350 VLDGVSLDLPPGERVAILGPSGSGKSTLLMLLTGLLDPL  388 (529)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            34444443334  48999999999999999999987543

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=97.42  E-value=0.00027  Score=62.66  Aligned_cols=36  Identities=25%  Similarity=0.300  Sum_probs=27.2

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+++..+....|  +-++|++|+||||++|+|++....
T Consensus       306 Av~~VSf~l~~GE~lglVGeSGsGKSTlar~i~gL~~P  343 (539)
T COG1123         306 AVDDVSFDLREGETLGLVGESGSGKSTLARILAGLLPP  343 (539)
T ss_pred             eeeeeeeEecCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344444444444  889999999999999999997643

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=97.41  E-value=0.00016  Score=56.04  Aligned_cols=23  Identities=22%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.+.|+||+||||+++.|+..++
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~   24 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILP   24 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            57889999999999999999983

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=97.41  E-value=0.00045  Score=58.73  Aligned_cols=27  Identities=22%  Similarity=0.397  Sum_probs=23.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.|.||+|+|||||+++|++.....
T Consensus        33 e~~~llGpsGsGKSTLLr~IaGl~~p~   59 (351)
T PRK11432         33 TMVTLLGPSGCGKTTVLRLVAGLEKPT   59 (351)
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCCCC
Confidence            348899999999999999999976543

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.41  E-value=0.00067  Score=52.33  Aligned_cols=20  Identities=25%  Similarity=0.376  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      ++++||+|+|||++++.++-
T Consensus         2 ~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67999999999999999993

>PRK07667 uridine kinase; Provisional

Probab=97.40  E-value=0.00024  Score=55.23  Aligned_cols=34  Identities=12%  Similarity=0.231  Sum_probs=27.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      -|.+.|+||+||||+++.|+..+   |.++..++..+
T Consensus        19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd   55 (193)
T PRK07667         19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD   55 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence            37899999999999999999987   34655666555

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.40  E-value=0.00012  Score=51.45  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=19.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMT   58 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la   58 (204)
                      +..+.|.||+|+|||||++++.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4558999999999999999987

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=97.40  E-value=0.00048  Score=50.39  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.+.|++|+|||+|++.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            679999999999999999886

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.40  E-value=0.00087  Score=57.96  Aligned_cols=62  Identities=21%  Similarity=0.411  Sum_probs=43.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc-ChHHH---HHHHHhcC--CCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK-ENMEL---RNMLIATK--NKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~--~~~il~iDeid~~  100 (204)
                      -++++||-+|||||+++.+.+.+...++.++..+.. ....+   ...+....  ....+++||++.+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v  106 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNV  106 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCc
Confidence            689999999999999999999886665566655543 22222   22222222  3479999999998

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.39  E-value=0.00018  Score=54.84  Aligned_cols=22  Identities=41%  Similarity=0.872  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|+||+||||+++.+...+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.39  E-value=0.00077  Score=59.89  Aligned_cols=64  Identities=20%  Similarity=0.272  Sum_probs=43.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCcc----------------------ChHHHHHHHHhcCCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFK----------------------ENMELRNMLIATKNK   89 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~   89 (204)
                      +..+.|+||+|+||||++..|+..+     +..+..++.....                      ....+...+......
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~  429 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDY  429 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccC
Confidence            3448899999999999999998764     3455555543321                      113444555555667


Q ss_pred             eEEEEecCCcc
Q 041769           90 SILVVGDIDYL  100 (204)
Q Consensus        90 ~il~iDeid~~  100 (204)
                      .+|+||.....
T Consensus       430 DLVLIDTaG~s  440 (559)
T PRK12727        430 KLVLIDTAGMG  440 (559)
T ss_pred             CEEEecCCCcc
Confidence            89999998875

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.39  E-value=0.00029  Score=56.01  Aligned_cols=38  Identities=21%  Similarity=0.149  Sum_probs=29.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      |++.+..++++||||+|||+++..++...   +.+++.++.
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~   56 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT   56 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc
Confidence            56666779999999999999998776432   566766665

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.

>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=97.39  E-value=9.1e-05  Score=59.33  Aligned_cols=39  Identities=18%  Similarity=0.330  Sum_probs=29.3

Q ss_pred             hHHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           25 RKEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+..+....+....|  +.|.||+|+|||||+++|++.+..
T Consensus        33 ~~~il~~vs~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p   73 (236)
T cd03267          33 EVEALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQP   73 (236)
T ss_pred             CeeeeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            334555555544444  889999999999999999997643

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.

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=97.38  E-value=0.00058  Score=58.12  Aligned_cols=27  Identities=26%  Similarity=0.458  Sum_probs=23.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.|.||+|+|||||+++||+.....
T Consensus        31 e~~~l~GpsGsGKSTLLr~iaGl~~p~   57 (353)
T TIGR03265        31 EFVCLLGPSGCGKTTLLRIIAGLERQT   57 (353)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCC
Confidence            348899999999999999999976543

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.38  E-value=0.00027  Score=53.72  Aligned_cols=34  Identities=29%  Similarity=0.442  Sum_probs=28.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      +++.|+||+|||+++..++..+   +..+..++....
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~   39 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTY   39 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence            6789999999999999998876   667777776644

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.37  E-value=0.00062  Score=56.77  Aligned_cols=39  Identities=10%  Similarity=0.131  Sum_probs=29.3

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc---------CCceEEeecCC
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL---------NFDVYDLELTT   72 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~---------~~~~~~~~~~~   72 (204)
                      ++.+.-+.++||||+|||+++-.++...         +..+++++..+
T Consensus        92 i~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        92 IETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            5555558899999999999999888663         23677777654

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.37  E-value=0.00028  Score=59.12  Aligned_cols=38  Identities=18%  Similarity=0.212  Sum_probs=28.7

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      |++.++-+.++||||+|||+|+..++...   |..+++++.
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~   91 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDA   91 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcc
Confidence            56666679999999999999977766544   556666654

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.37  E-value=0.00015  Score=56.61  Aligned_cols=23  Identities=48%  Similarity=0.917  Sum_probs=21.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ++++||+|+||||+++++++.+.
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            78999999999999999998884

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=97.37  E-value=0.00014  Score=55.06  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=22.8

Q ss_pred             ECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           43 YGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        43 ~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .|+||+||||++++++..++..++..+
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~~~~~d   27 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAAFLDGD   27 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCeEEeCc
Confidence            499999999999999999987655543

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.37  E-value=0.00021  Score=56.09  Aligned_cols=27  Identities=30%  Similarity=0.480  Sum_probs=23.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.||+|+|||||+++|++.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGIILPD   53 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            348899999999999999999976543

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.36  E-value=0.00063  Score=53.82  Aligned_cols=40  Identities=18%  Similarity=0.169  Sum_probs=30.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---C------CceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---N------FDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~------~~~~~~~~~~   72 (204)
                      |++.+.-+.++||||+|||+++..++...   +      ..+++++..+
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            56656668999999999999999998764   2      4556666544

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.

>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=97.36  E-value=0.00021  Score=56.17  Aligned_cols=27  Identities=33%  Similarity=0.432  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||++.|++.+..
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~~~~   53 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKEELP   53 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            334889999999999999999997644

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=97.36  E-value=7.8e-05  Score=59.27  Aligned_cols=48  Identities=19%  Similarity=0.102  Sum_probs=33.8

Q ss_pred             HHHHHHHHHhHHHHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           16 MDDLERFVKRKEFYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+.+...+..+..+....+....  .+.|.||+|+|||||+++|++....
T Consensus        25 ~~~~~~~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p   74 (224)
T cd03220          25 ILGRKGEVGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIYPP   74 (224)
T ss_pred             hhhhhhhcCCeEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34444444445556665554444  4889999999999999999997643

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.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.36  E-value=0.00017  Score=52.00  Aligned_cols=64  Identities=22%  Similarity=0.362  Sum_probs=39.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc--------------------eEEeecCCccChHHHHHH--HHhcCCCeEEEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD--------------------VYDLELTTFKENMELRNM--LIATKNKSILVV   94 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~--------------------~~~~~~~~~~~~~~~~~~--~~~~~~~~il~i   94 (204)
                      +.-++|.|+=|+|||||+|++++.+|..                    ++-+|+=.+....++...  .......++.+|
T Consensus        15 g~vi~L~GdLGaGKTtf~r~l~~~lg~~~~V~SPTF~l~~~Y~~~~~~l~H~DLYRl~~~~e~~~~g~~e~~~~~~i~~I   94 (123)
T PF02367_consen   15 GDVILLSGDLGAGKTTFVRGLARALGIDEEVTSPTFSLVNEYEGGNIPLYHFDLYRLEDPEELEDLGLEEYLFEDGICVI   94 (123)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHHTT--S----TTTTSEEEEEETTEEEEEEE-TT-SSTHHHHHCTTTTCSSSSEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCCCcCCCCeEEEEEecCCCceEEEeeccccCCHHHHHHCCchhhhCCCCEEEE
Confidence            4459999999999999999999999643                    111222222223333222  222346888999


Q ss_pred             ecCCcc
Q 041769           95 GDIDYL  100 (204)
Q Consensus        95 Deid~~  100 (204)
                      +..+.+
T Consensus        95 EW~e~~  100 (123)
T PF02367_consen   95 EWPERL  100 (123)
T ss_dssp             ESGGGG
T ss_pred             ECcccc
Confidence            888776

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=97.36  E-value=0.0001  Score=60.32  Aligned_cols=39  Identities=18%  Similarity=0.362  Sum_probs=29.1

Q ss_pred             hHHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           25 RKEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ....+.++.+....|  +.|.||+|+|||||+++|++.+..
T Consensus        36 ~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p   76 (269)
T cd03294          36 QTVGVNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLIEP   76 (269)
T ss_pred             CceEeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            333455555544444  889999999999999999998754

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.36  E-value=0.00019  Score=57.31  Aligned_cols=41  Identities=20%  Similarity=0.228  Sum_probs=29.0

Q ss_pred             HHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           28 FYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        28 ~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++....+....  .+.++|++||||||+++++++......-.+
T Consensus        22 ~l~~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I   64 (252)
T COG1124          22 ALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKPSSGSI   64 (252)
T ss_pred             hhcceeEEecCCCEEEEEcCCCCCHHHHHHHHhcccCCCCceE
Confidence            34444443334  488999999999999999999775544333

>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=97.35  E-value=0.00021  Score=57.12  Aligned_cols=28  Identities=32%  Similarity=0.555  Sum_probs=23.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +.-+.|.||+|+|||||+++|++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~~p~   53 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGLLRPD   53 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            3348899999999999999999987543

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.

>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=97.35  E-value=0.00019  Score=57.16  Aligned_cols=36  Identities=22%  Similarity=0.322  Sum_probs=27.1

Q ss_pred             HHHHhCCCCC--ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWK--HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~--~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+..+.+...  ..+.|.||+|+|||||+++|++.+..
T Consensus        20 il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~   57 (233)
T cd03258          20 ALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERP   57 (233)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            3444444333  44889999999999999999998754

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.

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.35  E-value=0.00029  Score=55.89  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++++|+||+|||++++.+....
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~   22 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR   22 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999983

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>TIGR00017 cmk cytidylate kinase

Probab=97.34  E-value=0.00023  Score=56.46  Aligned_cols=29  Identities=31%  Similarity=0.544  Sum_probs=25.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.+.||+|+||||+++.|++.++..++.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~   32 (217)
T TIGR00017         4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLD   32 (217)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            37799999999999999999999876654

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=97.34  E-value=0.00075  Score=50.40  Aligned_cols=22  Identities=14%  Similarity=0.472  Sum_probs=19.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+|||+|+..+....
T Consensus         2 i~~vG~~~~GKstLi~~l~~~~   23 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTLF   23 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhhc
Confidence            7899999999999999997654

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK12338 hypothetical protein; Provisional

Probab=97.34  E-value=0.00024  Score=59.36  Aligned_cols=30  Identities=20%  Similarity=0.325  Sum_probs=26.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      +.-+++.|+||+||||+++.+|..+|...+
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~~   33 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKHL   33 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeEE
Confidence            345889999999999999999999987654

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.34  E-value=0.00023  Score=56.10  Aligned_cols=27  Identities=26%  Similarity=0.405  Sum_probs=23.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.||+|+|||||+++|++.+...
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~~~~   56 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIEKPT   56 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            348899999999999999999987543

>PRK03846 adenylylsulfate kinase; Provisional

Probab=97.34  E-value=0.0003  Score=54.80  Aligned_cols=35  Identities=26%  Similarity=0.404  Sum_probs=27.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +.-+.|.|+||+||||+++.|++.+   |...+.++..
T Consensus        24 ~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d   61 (198)
T PRK03846         24 GVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGD   61 (198)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCE
Confidence            4458899999999999999999987   3445566543

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=97.34  E-value=0.0015  Score=59.10  Aligned_cols=63  Identities=19%  Similarity=0.216  Sum_probs=45.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC--ceEEeecCC----ccChHHHHHHHHhc-----------CCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF--DVYDLELTT----FKENMELRNMLIAT-----------KNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~--~~~~~~~~~----~~~~~~~~~~~~~~-----------~~~~il~iDeid~~  100 (204)
                      .|+++.|+.|+|||+++++++..++.  ++..+..+.    +.+.-++...+..-           ..++|||+||+..+
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~lDe~n~~  105 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLVLAMAERL  105 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeeccCCEEEecCcccC
Confidence            57999999999999999999999865  665544322    22333444433221           24689999999999

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=97.33  E-value=0.00054  Score=58.35  Aligned_cols=26  Identities=31%  Similarity=0.517  Sum_probs=22.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.|.||+|+|||||+++||+.....
T Consensus        32 ~~~llG~sGsGKSTLLr~iaGl~~p~   57 (356)
T PRK11650         32 FIVLVGPSGCGKSTLLRMVAGLERIT   57 (356)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCCCC
Confidence            37899999999999999999976543

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.33  E-value=0.00022  Score=55.65  Aligned_cols=27  Identities=30%  Similarity=0.530  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||++.+++.+..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~~~   50 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLLEKF   50 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            334889999999999999999997754

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.

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.33  E-value=0.00013  Score=60.14  Aligned_cols=36  Identities=25%  Similarity=0.381  Sum_probs=27.1

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+.++.+..+.|  +-|.||+|+||||++|.||+....
T Consensus        17 a~~di~l~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~p   54 (345)
T COG1118          17 ALDDISLDIKSGELVALLGPSGAGKSTLLRIIAGLETP   54 (345)
T ss_pred             ccccceeeecCCcEEEEECCCCCcHHHHHHHHhCcCCC
Confidence            344444444444  889999999999999999996644

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=97.33  E-value=0.00023  Score=59.34  Aligned_cols=32  Identities=22%  Similarity=0.458  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .-++++||+|||||+++..||+.++..+++.|
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~D   36 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRLNGEIISAD   36 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhCCCcEEecc
Confidence            34889999999999999999999987766554

>PRK08356 hypothetical protein; Provisional

Probab=97.33  E-value=0.00026  Score=55.09  Aligned_cols=27  Identities=15%  Similarity=0.149  Sum_probs=22.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++|+||||+||||+++.|.. .|...+.
T Consensus         8 i~~~G~~gsGK~t~a~~l~~-~g~~~is   34 (195)
T PRK08356          8 VGVVGKIAAGKTTVAKFFEE-KGFCRVS   34 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCcEEe
Confidence            78999999999999999964 6765433

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.32  E-value=0.00023  Score=55.91  Aligned_cols=27  Identities=26%  Similarity=0.453  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||+++|++.+..
T Consensus        26 G~~~~l~G~nGsGKSTLl~~l~G~~~~   52 (213)
T cd03262          26 GEVVVIIGPSGSGKSTLLRCINLLEEP   52 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344889999999999999999997744

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

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.32  E-value=0.00047  Score=58.56  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=20.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|.||||||.+|-.++..+
T Consensus         4 ~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    4 ILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEecCCcCHHHHHHHHHHHh
Confidence            7889999999999999999988

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.32  E-value=0.00018  Score=57.37  Aligned_cols=40  Identities=23%  Similarity=0.333  Sum_probs=30.6

Q ss_pred             hHHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           25 RKEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        25 ~~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .+..++++.+..++|  +.+.||+|+|||+++|.+.+.+.+.
T Consensus        20 ~~~Ild~v~l~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~   61 (263)
T COG1127          20 DRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPD   61 (263)
T ss_pred             CEEEecCceeeecCCcEEEEECCCCcCHHHHHHHHhccCCCC
Confidence            344455566655555  7799999999999999999987543

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.31  E-value=0.00046  Score=55.22  Aligned_cols=38  Identities=24%  Similarity=0.272  Sum_probs=27.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHH-HHHHhc--CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIA-AMTNYL--NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~-~la~~~--~~~~~~~~~   70 (204)
                      |++.+.-++++||||||||+++. .+++.+  |..+.+++.
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~   60 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVST   60 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeC
Confidence            46666669999999999999964 444433  556666664

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.31  E-value=0.00022  Score=56.06  Aligned_cols=35  Identities=29%  Similarity=0.488  Sum_probs=26.4

Q ss_pred             HHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           29 YRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        29 ~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.++.+....  -+.|.||+|+|||||+++|++.+..
T Consensus        18 l~~is~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~   54 (214)
T TIGR02673        18 LHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALTP   54 (214)
T ss_pred             ecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4444444334  4889999999999999999997643

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.31  E-value=0.00026  Score=54.68  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||+++|++....
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G~~~~   44 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNGLLRP   44 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344889999999999999999997643

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.31  E-value=0.0012  Score=61.02  Aligned_cols=63  Identities=22%  Similarity=0.352  Sum_probs=43.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc----C-CceEEeecCCcc----------------------ChHHHHHHHHhcCCCe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL----N-FDVYDLELTTFK----------------------ENMELRNMLIATKNKS   90 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~----~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~   90 (204)
                      .-++|+||+|+||||++..||..+    | ..+..++....+                      ...++.+.+.......
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            348899999999999999999766    3 345454443321                      1234455555556667


Q ss_pred             EEEEecCCcc
Q 041769           91 ILVVGDIDYL  100 (204)
Q Consensus        91 il~iDeid~~  100 (204)
                      +|+||=....
T Consensus       266 ~VLIDTAGRs  275 (767)
T PRK14723        266 LVLIDTVGMS  275 (767)
T ss_pred             EEEEeCCCCC
Confidence            9999998865

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=97.31  E-value=0.00021  Score=57.52  Aligned_cols=29  Identities=34%  Similarity=0.768  Sum_probs=21.6

Q ss_pred             EECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           42 LYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        42 l~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      +.||+|+||||+++++.+.+   +.+++.+|+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNL   32 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNL   32 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE-
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEc
Confidence            47999999999999999988   455555554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.31  E-value=0.00068  Score=57.23  Aligned_cols=35  Identities=31%  Similarity=0.399  Sum_probs=27.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +.-++|+||||+||||++..+|..+   |..+..++..
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~D  177 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGD  177 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            3458899999999999988888776   5556555544

>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=97.30  E-value=0.00027  Score=55.81  Aligned_cols=28  Identities=32%  Similarity=0.514  Sum_probs=23.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +..+.+.||+|+|||||+++|++.+...
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~~~~~   53 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTLLKPT   53 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            3348899999999999999999976543

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.30  E-value=0.001  Score=53.02  Aligned_cols=41  Identities=20%  Similarity=0.412  Sum_probs=29.8

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .+.+..+..+.|  +.+.||+|+|||||+|+|.+......-.+
T Consensus        19 aL~~Vnl~I~~GE~VaiIG~SGaGKSTLLR~lngl~d~t~G~i   61 (258)
T COG3638          19 ALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEI   61 (258)
T ss_pred             eeeeEeEEeCCCcEEEEECCCCCcHHHHHHHHhcccCCCcceE
Confidence            344444444454  88999999999999999999776554443

>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=97.30  E-value=0.00024  Score=56.12  Aligned_cols=26  Identities=31%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ..+.+.||+|+|||||+++|++....
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl~~~   56 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGLERP   56 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34889999999999999999997643

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.30  E-value=0.00023  Score=57.01  Aligned_cols=36  Identities=22%  Similarity=0.402  Sum_probs=27.1

Q ss_pred             HHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+.+..+....  -+.+.||+|+|||||+++|++.+..
T Consensus        17 il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~   54 (243)
T TIGR02315        17 ALKNINLNINPGEFVAIIGPSGAGKSTLLRCINRLVEP   54 (243)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            34444444444  3889999999999999999997743

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.

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=97.30  E-value=0.00028  Score=63.36  Aligned_cols=31  Identities=16%  Similarity=0.324  Sum_probs=29.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      ++|.|.||+||||+.+.+|+.++++++.+|.
T Consensus         9 i~LiG~~GaGKttvg~~LA~~L~~~fiD~D~   39 (542)
T PRK14021          9 AVIIGMMGAGKTRVGKEVAQMMRLPFADADV   39 (542)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEEchH
Confidence            8999999999999999999999999998774

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.29  E-value=0.00024  Score=55.54  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-+.+.||+|+|||||+++|++....
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl~~p   52 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAGLIKE   52 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            34889999999999999999997644

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=97.29  E-value=0.00026  Score=55.96  Aligned_cols=27  Identities=26%  Similarity=0.343  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.-+.+.||+|+|||||+++|++.+..
T Consensus        31 G~~~~i~G~nGsGKSTLl~~i~G~~~~   57 (221)
T TIGR02211        31 GEIVAIVGSSGSGKSTLLHLLGGLDNP   57 (221)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            334889999999999999999998754

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.29  E-value=0.00025  Score=55.61  Aligned_cols=35  Identities=26%  Similarity=0.476  Sum_probs=26.4

Q ss_pred             HHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           29 YRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        29 ~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+....  -+.|.||+|+|||||+++|++....
T Consensus        17 l~~vs~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~   53 (211)
T cd03225          17 LDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLGP   53 (211)
T ss_pred             ecceEEEEcCCcEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4444444334  3889999999999999999997643

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.29  E-value=0.00028  Score=55.39  Aligned_cols=27  Identities=22%  Similarity=0.384  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||++.|++.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~~~   52 (213)
T cd03301          26 GEFVVLLGPSGCGKTTTLRMIAGLEEP   52 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            334889999999999999999997643

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.

>cd00879 Sar1 Sar1 subfamily

Probab=97.28  E-value=0.0011  Score=50.86  Aligned_cols=31  Identities=19%  Similarity=0.388  Sum_probs=24.0

Q ss_pred             HHHhCCCCCc-eeEEECCCCCcHHHHHHHHHH
Q 041769           29 YRNVGKAWKH-SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        29 ~~~~~~~~~~-g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +..+++.... -+++.|++|+|||+|++.+..
T Consensus        10 ~~~~~~~~~~~ki~ilG~~~~GKStLi~~l~~   41 (190)
T cd00879          10 LSSLGLYNKEAKILFLGLDNAGKTTLLHMLKD   41 (190)
T ss_pred             HHHhhcccCCCEEEEECCCCCCHHHHHHHHhc
Confidence            4445544433 389999999999999999986

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.28  E-value=0.00024  Score=56.49  Aligned_cols=27  Identities=22%  Similarity=0.426  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.|.||+|+|||||+++|++.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~~~   52 (230)
T TIGR03410        26 GEVTCVLGRNGVGKTTLLKTLMGLLPV   52 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            334899999999999999999998754

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.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.28  E-value=0.00098  Score=55.59  Aligned_cols=36  Identities=19%  Similarity=0.345  Sum_probs=27.2

Q ss_pred             HHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           29 YRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        29 ~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ++++.+..+.|  +.|.||+|+|||||++.|++.+...
T Consensus        23 l~~vsl~i~~Gei~gllGpNGaGKSTLl~~l~Gl~~p~   60 (306)
T PRK13537         23 VDGLSFHVQRGECFGLLGPNGAGKTTTLRMLLGLTHPD   60 (306)
T ss_pred             EecceEEEeCCcEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            34444444444  8899999999999999999987543

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=97.28  E-value=0.00088  Score=53.06  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -+++.||+|+|||++++.++.
T Consensus        32 ~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          32 ILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            478999999999999999974

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 sliding clam

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=97.28  E-value=0.00049  Score=52.89  Aligned_cols=29  Identities=28%  Similarity=0.481  Sum_probs=24.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      ++-++|+||+|+|||++++.|....+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~   30 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKF   30 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhccccc
Confidence            45689999999999999999999886543

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=97.28  E-value=0.00086  Score=57.25  Aligned_cols=26  Identities=27%  Similarity=0.531  Sum_probs=22.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.|.||+|+|||||+++||+.....
T Consensus        33 ~~~llGpsGsGKSTLLr~iaGl~~p~   58 (362)
T TIGR03258        33 LLALIGKSGCGKTTLLRAIAGFVKAA   58 (362)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            38899999999999999999966443

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.28  E-value=0.00027  Score=55.55  Aligned_cols=35  Identities=20%  Similarity=0.332  Sum_probs=26.4

Q ss_pred             HHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           29 YRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        29 ~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.+..+....  -+.+.||+|+|||||+++|++.+..
T Consensus        16 l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p   52 (213)
T cd03259          16 LDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLERP   52 (213)
T ss_pred             ecceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4444444333  4889999999999999999997644

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=97.28  E-value=0.00029  Score=56.43  Aligned_cols=27  Identities=26%  Similarity=0.439  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||+++|++.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   54 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGLERP   54 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344889999999999999999997744

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.

>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=97.28  E-value=0.00025  Score=56.04  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||+++|++....
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   52 (222)
T cd03224          26 GEIVALLGRNGAGKTTLLKTIMGLLPP   52 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            334889999999999999999997754

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.

>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=97.27  E-value=0.00025  Score=50.07  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +++.|++|+|||+|++.++....
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            78999999999999999998553

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.27  E-value=0.00028  Score=56.60  Aligned_cols=27  Identities=33%  Similarity=0.479  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+.+.||+|+|||||+++|++....
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~~~~   54 (242)
T PRK11124         28 GETLVLLGPSGAGKSSLLRVLNLLEMP   54 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344899999999999999999997643

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=97.27  E-value=9.7e-05  Score=62.29  Aligned_cols=64  Identities=22%  Similarity=0.347  Sum_probs=37.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeec----CCcc-----ChHHHHHHH----HhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL----TTFK-----ENMELRNML----IATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~----~~~~-----~~~~~~~~~----~~~~~~~il~iDeid~~  100 (204)
                      ..++||+|.||+|||.|++.+++..+..++..-.    .++.     ....-.+.+    -....++|.+|||+|.+
T Consensus        57 ~ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk~  133 (331)
T PF00493_consen   57 NIHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSSAAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDKM  133 (331)
T ss_dssp             S--EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT-
T ss_pred             ccceeeccchhhhHHHHHHHHHhhCCceEEECCCCcccCCccceeccccccceeEEeCCchhcccCceeeecccccc
Confidence            3469999999999999999998877666543211    1111     100000111    11246799999999999

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.27  E-value=0.00024  Score=59.57  Aligned_cols=25  Identities=24%  Similarity=0.456  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.++++.|++|+||||++++|+...
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4569999999999999999999876

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=97.27  E-value=0.00033  Score=57.78  Aligned_cols=31  Identities=29%  Similarity=0.578  Sum_probs=27.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      ++++||+|+|||+++..|++.++..++++|.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~~iis~Ds   32 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNAEIISVDS   32 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcEEEech
Confidence            6799999999999999999999888777653

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=97.27  E-value=0.00077  Score=57.83  Aligned_cols=25  Identities=24%  Similarity=0.505  Sum_probs=22.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.|.||+|+|||||+++||+....
T Consensus        42 ~~~LlGpsGsGKSTLLr~IaGl~~p   66 (375)
T PRK09452         42 FLTLLGPSGCGKTTVLRLIAGFETP   66 (375)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            3889999999999999999997654

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=97.27  E-value=0.00042  Score=53.33  Aligned_cols=30  Identities=27%  Similarity=0.455  Sum_probs=25.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~   69 (204)
                      +.|.|++|+||||+++.|++.+   |..+..+.
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~   35 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLTR   35 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            6788999999999999999998   55665543

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.27  E-value=0.00025  Score=56.23  Aligned_cols=36  Identities=31%  Similarity=0.354  Sum_probs=27.2

Q ss_pred             HHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+....+..+.  -+.+.||+|+|||||++.|++.+..
T Consensus        20 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~   57 (228)
T cd03257          20 ALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLLKP   57 (228)
T ss_pred             eecCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34444444444  4899999999999999999997744

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.27  E-value=0.00028  Score=55.67  Aligned_cols=36  Identities=19%  Similarity=0.252  Sum_probs=27.2

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+..+.+....|  +.+.||+|+|||||+++|++....
T Consensus        17 il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   54 (220)
T cd03263          17 AVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGELRP   54 (220)
T ss_pred             eecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            344444444444  889999999999999999997754

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.26  E-value=0.00053  Score=63.23  Aligned_cols=37  Identities=16%  Similarity=0.278  Sum_probs=29.4

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .++++.+..+.|  +.++|++|+|||||+|.+.+.+.+.
T Consensus       488 vL~~isL~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~  526 (709)
T COG2274         488 VLEDLSLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQ  526 (709)
T ss_pred             hhhceeEEeCCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            455555555566  9999999999999999999976543

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=97.26  E-value=0.00035  Score=54.38  Aligned_cols=30  Identities=30%  Similarity=0.349  Sum_probs=26.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+.++|++|+||||+++.++. +|.+++..|
T Consensus         4 ~i~ltG~~gsGKst~~~~l~~-~g~~~i~~D   33 (194)
T PRK00081          4 IIGLTGGIGSGKSTVANLFAE-LGAPVIDAD   33 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEEec
Confidence            388999999999999999998 887776655

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.26  E-value=0.00013  Score=55.92  Aligned_cols=30  Identities=23%  Similarity=0.296  Sum_probs=22.5

Q ss_pred             HHhCCCCCc--eeEEECCCCCcHHHHHHHHHH
Q 041769           30 RNVGKAWKH--SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        30 ~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.+..+.  -+.+.||+|+|||||++++..
T Consensus        12 ~~isl~i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          12 QNLDVSIPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             cceEEEEcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            333443334  388999999999999999864

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	204
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		4e-04
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		5e-04
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		9e-04

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           T+D +   +   + I + +E  VK  E + ++G A      LYGPPGTGK+ L  A+ ++
Sbjct: 146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH 205

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 12  KQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTN 59
           KQ I + +E  + + + Y  +G        LYGPPGTGK+ L+ A+ N
Sbjct: 181 KQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 38  HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT-----FKENMELRNMLIATKNKSIL 92
           HS  L+GPPGTGK++L   +  Y N DV  +   T      +E +E          ++IL
Sbjct: 51  HSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIERARQNRNAGRRTIL 110
Query: 93  VVGDI 97
            V ++
Sbjct: 111 FVDEV 115

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	204
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	5e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-05
2qgz_A	308	Helicase loader, putative primosome component; str	1e-04
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	3e-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 = 51.8 bits (123), Expect = 4e-08
 Identities = 33/214 (15%), Positives = 58/214 (27%), Gaps = 54/214 (25%)

Query: 21  RFVKRKEFYRNVGKAWK----HSY-FLYGPPGTGKSSLIAA------MTNYLNFDVYDLE 69
             V R + Y  + +A           + G  G+GK+ +         +   ++F ++ L 
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 70  LTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRF---K 126
           L        +  ML                  L   +  +      H S     R    +
Sbjct: 189 LKNCNSPETVLEML----------------QKLLYQIDPNWTSRSDHSSN-IKLRIHSIQ 231

Query: 127 MLASNYFGITEHP--LLTEID-----ELIEKANV---TL-----ADVVEQLMRNKVPEIA 171
                      +   LL  +      +     N+    L       V + L       I+
Sbjct: 232 AELRRLLKSKPYENCLLV-LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290

Query: 172 LRGLTDVFKIKQTENDESKAKEAK--EERADDAP 203
           L   +       T  DE K+   K  + R  D P
Sbjct: 291 LDHHSMTL----TP-DEVKSLLLKYLDCRPQDLP 319

>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 = 42.9 bits (100), Expect = 4e-05
 Identities = 35/223 (15%), Positives = 70/223 (31%), Gaps = 63/223 (28%)

Query: 14  MIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD----VYDLE 69
           +I + +   +   + +++V    K +  +       +SSL     N L       ++D  
Sbjct: 332 IIAESIRDGLATWDNWKHVNC-DKLTTII-------ESSL-----NVLEPAEYRKMFD-R 377

Query: 70  LTTFKEN--------------MELRN-MLIATK--NKSILVVGDIDYLT-----LHILLR 107
           L+ F  +              +   + M++  K    S LV       T     +++ L+
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS-LVEKQPKESTISIPSIYLELK 436

Query: 108 SSCMD---MH--------IHMSYCTPFRFKMLASNYFG--ITEHPLLTEIDELIEKANVT 154
               +   +H        I  ++ +          YF   I  H    E  E +    + 
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496

Query: 155 LADV--VEQLMRNKVPEIALRG-----LTDVFKIKQ--TENDE 188
             D   +EQ +R+        G     L  +   K    +ND 
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 41.6 bits (98), Expect = 5e-05
 Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)

Query: 1  TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
          +   + ++ + +   +   ERFV   E  +          +L+G  G GK+ L+AA+ N 
Sbjct: 23 SLSDVDLNDDGRIKAIRFAERFVAEYEPGKK-----MKGLYLHGSFGVGKTYLLAAIANE 77

Query: 61 L 61
          L
Sbjct: 78 L 78

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 41.0 bits (96), Expect = 1e-04
 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
               + +++  +      +  FV+          A +   +LYG  G GKS L+AAM + 
Sbjct: 122 HLSDIDVNNASRMEAFSAILDFVE------QYPSAEQKGLYLYGDMGIGKSYLLAAMAHE 175

Query: 61  L 61
           L
Sbjct: 176 L 176

>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 = 40.3 bits (94), Expect = 2e-04
 Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 6/74 (8%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYF----LYGPPGTGKSSLIAA 56
               +  +      + + L  +   K+             F    LYGPPG GK++    
Sbjct: 37  NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL 96

Query: 57  MTNYLNFDVYDLEL 70
           +   L +D+  LE 
Sbjct: 97  VAQELGYDI--LEQ 108

>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 = 38.9 bits (91), Expect = 3e-04
 Identities = 12/61 (19%), Positives = 18/61 (29%), Gaps = 6/61 (9%)

Query: 1  TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
            DT    +  +   +  +  FV       N            G PG GK+ L  A    
Sbjct: 8  NLDTYHPKNVSQNRALLTIRVFVH------NFNPEEGKGLTFVGSPGVGKTHLAVATLKA 61

Query: 61 L 61
          +
Sbjct: 62 I 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	204
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.97
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.97
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.97
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.97
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.97
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.96
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.93
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.92
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.91
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.89
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.87
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.86
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.86
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.86
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.84
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.84
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.83
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.83
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.81
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.81
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.81
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.81
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.79
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.77
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.77
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.76
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.72
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.71
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.71
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.65
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.6
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.59
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.58
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.56
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.54
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.51
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.46
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.46
3pvs_A	447	Replication-associated recombination protein A; ma	99.43
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.43
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.41
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.41
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.41
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.4
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.39
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.38
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.37
3bos_A	242	Putative DNA replication factor; P-loop containing	99.36
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.35
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.35
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.32
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.32
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.32
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.32
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.31
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.3
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.28
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.28
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.27
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.25
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.24
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.24
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.24
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.23
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.23
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.23
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.23
3co5_A	143	Putative two-component system transcriptional RES	99.22
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.21
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.2
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.17
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.16
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.16
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.12
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.11
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.08
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.06
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.06
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.03
2qgz_A	308	Helicase loader, putative primosome component; str	99.0
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.97
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.93
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.88
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.86
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.8
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.78
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.62
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.61
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.59
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.5
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.48
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.47
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.42
2fna_A	357	Conserved hypothetical protein; structural genomic	98.35
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.31
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.3
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	98.19
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.19
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	98.18
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.18
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	98.16
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	98.15
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	98.13
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.1
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	98.05
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	98.05
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.05
1via_A	175	Shikimate kinase; structural genomics, transferase	98.04
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.02
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	98.02
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	98.01
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	98.01
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	98.0
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	98.0
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.97
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.97
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.95
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.94
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.93
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.92
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.91
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.9
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.9
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.89
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.89
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	97.89
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.89
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.88
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.87
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.86
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.86
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.86
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.85
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.85
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.84
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.84
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.84
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.84
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.84
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.84
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.83
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.81
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.81
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.8
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.79
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.79
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.79
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.78
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.78
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.78
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.77
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.77
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.76
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.76
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.76
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.76
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.75
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.74
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.73
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.72
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.72
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.72
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.71
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.7
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.68
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.66
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.66
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.65
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.65
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.65
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.64
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.64
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.64
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.63
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	97.63
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.63
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.61
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.6
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.6
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.59
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.59
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.58
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.58
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.58
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.58
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.57
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.56
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.56
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.56
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.55
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.55
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.55
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.54
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.54
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.53
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.53
2og2_A	359	Putative signal recognition particle receptor; nuc	97.53
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	97.52
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.52
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.52
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.51
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.51
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.5
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.5
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.49
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	97.49
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.49
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.49
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.48
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.47
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.47
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.47
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	97.47
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.46
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	97.45
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.45
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.45
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.44
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.43
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.43
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.43
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.42
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	97.42
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.41
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.4
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.39
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.39
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	97.38
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.38
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.38
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.38
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.37
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.37
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.37
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.36
1g6h_A	257	High-affinity branched-chain amino acid transport	97.36
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.35
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.35
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.34
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.34
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.33
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.33
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.33
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.33
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.32
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.3
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.3
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.3
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.29
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.29
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.29
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.28
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.28
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.27
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.27
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.27
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.27
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.25
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.25
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.25
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.22
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.22
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.21
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.21
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.21
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.21
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.21
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.2
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.2
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.19
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.19
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	97.18
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.18
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.18
3f8t_A	506	Predicted ATPase involved in replication control,	97.18
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.18
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.18
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.17
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.17
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.17
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	97.16
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	97.16
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.15
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	97.15
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.15
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.14
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.14
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	97.14
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.14
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	97.13
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.12
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	97.11
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.11
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.11
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.11
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.1
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	97.1
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.09
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.07
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.07
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.07
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	97.06
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.06
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.06
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.05
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.05
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.04
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.04
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.04
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	97.03
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.03
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.02
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.02
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.02
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.01
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.01
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.99
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.99
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.99
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.98
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.98
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.97
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.96
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.95
3io5_A	333	Recombination and repair protein; storage dimer, i	96.95
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.92
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.92
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.92
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.9
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.9
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.89
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	96.89
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.88
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.88
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.87
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.84
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.83
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.83
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	96.82
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.8
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.79
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.79
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	96.79
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.78
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	96.77
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.76
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.76
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.76
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.76
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.76
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.76
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.75
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.75
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.74
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	96.73
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.73
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.72
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.72
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.71
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.69
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.69
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	96.69
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	96.68
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.67
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.67
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.66
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.66
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.64
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.63
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.63
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.63
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.6
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.6
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.6
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.59
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.58
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.58
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.57
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.57
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.57
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.56
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.56
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.56
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	96.56
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.55
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.53
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.52
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.52
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	96.52
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.52
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.51
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.51
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.51
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	96.51
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.5
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	96.5
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.5
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	96.49
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	96.49
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.48
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.48
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.47
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.46
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.46
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.45
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.43
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.42
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	96.42
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.41
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.41
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	96.41
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.41
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	96.41
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.4
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.39
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	96.39
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.39
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	96.39
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.38
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.37
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.37
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.36
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.35
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	96.35
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	96.35
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.34
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.34
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.33
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.32
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	96.31
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.3
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.29
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.29
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.29
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.29
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	96.28
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	96.27
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.27
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.27
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	96.26
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.25
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.25
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.24
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	96.24
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.24
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	96.23
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.23
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	96.22
2xxa_A	433	Signal recognition particle protein; protein trans	96.22
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.21
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	96.2
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	96.19
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	96.19
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.18
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	96.18
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.18
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.17
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.16
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	96.16
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.16
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	96.16
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	96.15
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.14
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.13
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	96.13
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.13
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	96.12
3ice_A	422	Transcription termination factor RHO; transcriptio	96.11
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.11
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.1
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.09
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	96.07
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.06
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	96.06
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.06
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	96.05
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	96.03
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	96.02
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.02
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.02
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.01
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.0
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.99
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	95.98
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	95.97
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	95.95
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	95.94
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.92
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	95.92
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.92
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	95.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.9
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.9

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=4.2e-31  Score=223.94  Aligned_cols=163  Identities=21%  Similarity=0.268  Sum_probs=138.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+..++.+++.|..+|+++++|+|||||||||||++|+++|++++.+++.++.+.+..     
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGe  225 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGE  225 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccch
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988743     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+||||||+|.+.                 +                             .|++
T Consensus       226 se~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAll  305 (405)
T 4b4t_J          226 GSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALL  305 (405)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHc
Confidence             35677888776  479999999999980                 0                             0999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||||||..|.++.|+..+|..|++.|+..........+..+... .||+++||..+|.
T Consensus       306 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~  363 (405)
T 4b4t_J          306 RPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCT  363 (405)
T ss_dssp             STTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHH
T ss_pred             CCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHH
Confidence            99999999999999999999999988765422211223333333 6899999999873

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=5.4e-30  Score=219.85  Aligned_cols=163  Identities=19%  Similarity=0.246  Sum_probs=137.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.+++++.+.+.+..++.+++.|..+|+++++|+|||||||||||++|+++|++++.+++.++.+++..     
T Consensus       179 ~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Ge  258 (437)
T 4b4t_L          179 TFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGE  258 (437)
T ss_dssp             CSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSH
T ss_pred             ChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchH
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988743     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+||||||+|.+                 ++                             .|++
T Consensus       259 se~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAll  338 (437)
T 4b4t_L          259 SARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALL  338 (437)
T ss_dssp             HHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTT
T ss_pred             HHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHh
Confidence             24566777666  48999999999998                 00                             0899


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||||||..|.|+.|+..+|..|++.|+..........+..+... .||+++||.++|.
T Consensus       339 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~  396 (437)
T 4b4t_L          339 RPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCAT  396 (437)
T ss_dssp             STTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHH
T ss_pred             CCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHH
Confidence            99999999999999999999999988764322211223334433 6899999999874

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=4.8e-30  Score=218.31  Aligned_cols=163  Identities=19%  Similarity=0.241  Sum_probs=137.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|.|.+++++.|.+.+..++.+++.|...|+++++|+|||||||||||++|+++|++++.+++.++.+++..     
T Consensus       180 ~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vGe  259 (437)
T 4b4t_I          180 SYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGD  259 (437)
T ss_dssp             CGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSSH
T ss_pred             cceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCch
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988743     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+||||||+|.+                 ++                             .|++
T Consensus       260 sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALl  339 (437)
T 4b4t_I          260 GPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALI  339 (437)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSS
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHh
Confidence             24567777766  47999999999998                 00                             0999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||||||.+|.|+.|+..+|..|+..|+..........+..++.. .+|+++||.++|.
T Consensus       340 RpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~  397 (437)
T 4b4t_I          340 RPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCT  397 (437)
T ss_dssp             CTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHH
T ss_pred             cCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHH
Confidence            99999999999999999999999988865422211223333332 6899999999884

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=3.7e-29  Score=214.63  Aligned_cols=161  Identities=19%  Similarity=0.182  Sum_probs=138.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.+++++.|.+.+..++.+++.|..+|+++++|+|||||||||||++|+++|++++.+++.++.+.+..     
T Consensus       207 t~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~vGe  286 (467)
T 4b4t_H          207 TYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGE  286 (467)
T ss_dssp             CCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSSSH
T ss_pred             CHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccCCH
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988743     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+||||||+|.+.                 +                             .|++
T Consensus       287 sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALl  366 (467)
T 4b4t_H          287 GARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALL  366 (467)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHH
T ss_pred             HHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhh
Confidence             35667777776  489999999999980                 0                             0999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCC---CcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEH---PLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      ||||||.+|.|+.|+..+|..|++.|+.....   .....++..+  .||+++||.++|.
T Consensus       367 RpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T--~GfSGADI~~l~~  424 (467)
T 4b4t_H          367 RPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLC--PNSTGAELRSVCT  424 (467)
T ss_dssp             STTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHC--CSCCHHHHHHHHH
T ss_pred             ccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHC--CCCCHHHHHHHHH
Confidence            99999999999999999999999988865422   2233444333  5899999999884

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1e-29  Score=217.93  Aligned_cols=161  Identities=18%  Similarity=0.242  Sum_probs=136.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.+++++.+.+.+..++.+++.|..+|+++++|+|||||||||||++|+++|++++.+++.++.+.+..     
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGe  258 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGE  258 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSH
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccch
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988743     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+||||||+|.+                 ++                             .|++
T Consensus       259 se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~All  338 (434)
T 4b4t_M          259 GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALL  338 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTC
T ss_pred             HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHh
Confidence             24567777665  37999999999988                 00                             0899


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCC---CCcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITE---HPLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      ||||||..|.|+.|+..+|..|++.|+....   ......++..+  .||+++||.++|.
T Consensus       339 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t--~G~sGADi~~l~~  396 (434)
T 4b4t_M          339 RSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARST--DEFNGAQLKAVTV  396 (434)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHC--SSCCHHHHHHHHH
T ss_pred             cCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhC--CCCCHHHHHHHHH
Confidence            9999999999999999999999988775432   22233443333  6899999999884

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.96  E-value=6.4e-29  Score=212.80  Aligned_cols=163  Identities=21%  Similarity=0.316  Sum_probs=136.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+..++.+++.|..+|+++++|+|||||||||||++|+++|++++.+++.++.+++..     
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~~Ge  249 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGE  249 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSSCSH
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccccch
Confidence            699999999999999999999999999999999999999999999999999999999999999999999988642     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCcc-----------------ch-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYL-----------------TL-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~-----------------~~-----------------------------~a~~  106 (204)
                       ...++.+|..+  ..|+|+||||+|.+                 ++                             .|++
T Consensus       250 ~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~All  329 (428)
T 4b4t_K          250 GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALL  329 (428)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcChhhh
Confidence             35677787776  47999999999987                 00                             0999


Q ss_pred             hccccceeEecC-CCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMS-YCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~-~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      ||||||..|.|+ .|+..+|..|+..++..........+..++.. .||+++||..+|.
T Consensus       330 RpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~  388 (428)
T 4b4t_K          330 RPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQ  388 (428)
T ss_dssp             SSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHH
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHH
Confidence            999999999996 89999999999888754322111223333332 6899999999883

>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=99.93  E-value=1.5e-25  Score=204.20  Aligned_cols=175  Identities=15%  Similarity=0.214  Sum_probs=142.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|.|.++++++|.+.+...+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+++.++.+++.+     
T Consensus       202 ~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~ge  281 (806)
T 3cf2_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  281 (806)
T ss_dssp             CGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTH
T ss_pred             ChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchH
Confidence            589999999999999999999899999999999999999999999999999999999999999999999877532     


Q ss_pred             -hHHHHHHHHhcC--CCeEEEEecCCccc------------------------------------------h-hhhhhcc
Q 041769           76 -NMELRNMLIATK--NKSILVVGDIDYLT------------------------------------------L-HILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~~--~~~il~iDeid~~~------------------------------------------~-~a~~r~~  109 (204)
                       ...++.+|..+.  .|+||||||+|.+.                                          + .+++|+|
T Consensus       282 se~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~G  361 (806)
T 3cf2_A          282 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  361 (806)
T ss_dssp             HHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCc
Confidence             356778888774  78999999999980                                          0 0888899


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHhcCCCHHHHHHhHHHHHH
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLMRNKVPEIALRGLTDVFK  180 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~  180 (204)
                      ||+..|.++.|+..+|..|++.++..........+..+.. ..+|+++|+..+|.     +.++..+.+...
T Consensus       362 RFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~-----eA~~~A~~r~~~  428 (806)
T 3cf2_A          362 RFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS-----EAALQAIRKKMD  428 (806)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHH-----HHHHHHHHHHHH
T ss_pred             ccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHH-----HHHHHHHHhccc
Confidence            9999999999999999999998876542222223333443 37899999999883     334444444443

>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=99.92  E-value=5.3e-26  Score=207.25  Aligned_cols=174  Identities=14%  Similarity=0.231  Sum_probs=128.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|+++.|.+++++.+.+.+...+.+++.|...|...++|+|||||||||||.+|+++|.+++.+++.++.+++.      
T Consensus       475 ~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGe  554 (806)
T 3cf2_A          475 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE  554 (806)
T ss_dssp             CSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSS
T ss_pred             CHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccch
Confidence            58999999999999999998888888999999999999999999999999999999999999999999887752      


Q ss_pred             ChHHHHHHHHhcC--CCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           75 ENMELRNMLIATK--NKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~~--~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                      +...++++|..+.  .|+||||||+|.+.                 +                             .|++
T Consensus       555 se~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~All  634 (806)
T 3cf2_A          555 SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAIL  634 (806)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHc
Confidence            4567888988873  78999999999980                 0                             0999


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHhcCCCHHHHHHhHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLMRNKVPEIALRGLTDVF  179 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~~~~~~~~~~~~~~~~~  179 (204)
                      ||||||..|.++.|+.++|..|++.++..........+..+.+. .+||++||.++|.     +.++..+.+.+
T Consensus       635 RpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~-----~A~~~a~r~~~  703 (806)
T 3cf2_A          635 RPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQ-----RACKLAIRESI  703 (806)
T ss_dssp             STTTSCCEEEC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHH-----HHHHHHHHHHH
T ss_pred             CCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCCHHHHHHHHH-----HHHHHHHHHHH
Confidence            99999999999999999999999888765432222334444443 5899999999983     44444444443

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.91  E-value=5.1e-23  Score=167.43  Aligned_cols=163  Identities=15%  Similarity=0.228  Sum_probs=129.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+...+.++..+..+++..+.|++|+||||||||++++++|+.++..++.++...+..     
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~   87 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGE   87 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhH
Confidence            589999999999999999988899999999999999999999999999999999999999999999998877642     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCcc---------------------chh----------------------hhhhcc
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYL---------------------TLH----------------------ILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~---------------------~~~----------------------a~~r~~  109 (204)
                       ...+..+|..+  ..++++++||+|.+                     .++                      +++|||
T Consensus        88 ~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~g  167 (274)
T 2x8a_A           88 SERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPG  167 (274)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTT
T ss_pred             HHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcc
Confidence             13455666654  46899999999975                     011                      889999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCC------CCCcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGIT------EHPLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~------~~~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      |||..|.++.|+..+|..|++.+....      .......+...+...+|+++|+..+|.
T Consensus       168 Rfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~  227 (274)
T 2x8a_A          168 RLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVR  227 (274)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHH
T ss_pred             cCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHH
Confidence            999999999999999999999887431      112223333322335899999999883

>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=99.89  E-value=1e-21  Score=161.62  Aligned_cols=161  Identities=16%  Similarity=0.238  Sum_probs=130.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+++++.+.+.+...+..++.|..+++..+.+++||||||||||++|+++|+.++.+++.++.+.+.      
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~   92 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE   92 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCc
Confidence            58999999999999999999888999999999999999999999999999999999999999999999876642      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                      ....+..+|..+  ..+++|+|||+|.+.                                             + .+++
T Consensus        93 ~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al~  172 (301)
T 3cf0_A           93 SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAIL  172 (301)
T ss_dssp             CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGGG
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHHh
Confidence            224456666665  367999999999641                                             0 1678


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCC---CcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEH---PLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      |+|||+..+.++.|+..++..++..++.....   .....+...  ..+++++++.++|.
T Consensus       173 r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~--~~g~sg~dl~~l~~  230 (301)
T 3cf0_A          173 RPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM--TNGFSGADLTEICQ  230 (301)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHT--CSSCCHHHHHHHHH
T ss_pred             cCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHH--cCCCCHHHHHHHHH
Confidence            88999999999999999999999888764322   222333322  36889999998873

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.87  E-value=9e-21  Score=154.02  Aligned_cols=162  Identities=19%  Similarity=0.227  Sum_probs=128.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+......++.+..+|...+.+++|+||||||||++|+++|+.++.+++.++.+.+..     
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~   94 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGE   94 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccch
Confidence            589999999999999999998888999999999999999999999999999999999999999999999877632     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------h-----------------------------hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------L-----------------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------~-----------------------------~a~~  106 (204)
                       ...+...|...  ..+++|+|||+|.+.                 +                             .+++
T Consensus        95 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~  174 (285)
T 3h4m_A           95 GASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAIL  174 (285)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHc
Confidence             13344455444  367899999998751                 0                             0677


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQL  162 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~  162 (204)
                      |++||+..+.++.|+.+++..++..+...........+..+.. ..++++.++..++
T Consensus       175 ~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~  231 (285)
T 3h4m_A          175 RPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAIC  231 (285)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHH
T ss_pred             CCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHH
Confidence            7889999999999999999999988876432222222333333 2578998888866

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.86  E-value=2.7e-20  Score=154.56  Aligned_cols=160  Identities=20%  Similarity=0.284  Sum_probs=126.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-CCceEEeecCCccC----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-NFDVYDLELTTFKE----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-~~~~~~~~~~~~~~----   75 (204)
                      +|++++|.+++++.+.+.+...+..++.|.. +...++|+|||||||||||++|+++|+++ +.+++.++.+.+..    
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g   88 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLG   88 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhh
Confidence            5999999999999999998888877776653 34556899999999999999999999999 88999999887632    


Q ss_pred             --hHHHHHHHHhc--CCCeEEEEecCCccc-------------------------------------------h-hhhhh
Q 041769           76 --NMELRNMLIAT--KNKSILVVGDIDYLT-------------------------------------------L-HILLR  107 (204)
Q Consensus        76 --~~~~~~~~~~~--~~~~il~iDeid~~~-------------------------------------------~-~a~~r  107 (204)
                        ...++.+|..+  ..+++|||||+|.+.                                           + .+++|
T Consensus        89 ~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~r  168 (322)
T 1xwi_A           89 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR  168 (322)
T ss_dssp             SCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHh
Confidence              34556666654  478999999999870                                           0 05666


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCC-cHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHP-LLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                        ||+..+.++.|+..++..++..++...... ....+..+... .|++++++..+|.
T Consensus       169 --Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          169 --RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             --TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             --hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              999999999999999999999887654332 33445555554 6899999999883

>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=99.86  E-value=2.6e-20  Score=149.18  Aligned_cols=162  Identities=19%  Similarity=0.266  Sum_probs=116.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++.+.+.+.. +..+..|...|...+.+++||||||||||++|+++|+.++.+++.++.+.+..     
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTH
T ss_pred             CHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccCh
Confidence            589999999999999776654 56667778888888999999999999999999999999999999999887632     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc------------------h-----------------------------hhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT------------------L-----------------------------HIL  105 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~------------------~-----------------------------~a~  105 (204)
                       ...+...|..+  ..+++|+|||+|.+.                  +                             .++
T Consensus        83 ~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l  162 (262)
T 2qz4_A           83 GAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGAL  162 (262)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGG
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHH
Confidence             23445555554  358999999999750                  0                             166


Q ss_pred             hhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHH--HHHHhhh-CCCCHHHHHHHHh
Q 041769          106 LRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTE--IDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       106 ~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~--~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      +|++||+..+.++.|+.+++..++..++..........  ...+... .+++++++.+++.
T Consensus       163 ~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~  223 (262)
T 2qz4_A          163 MRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICN  223 (262)
T ss_dssp             GSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             hcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHH
Confidence            77789999999999999999999888775432222222  2333332 5788988888763

>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=99.86  E-value=1.7e-20  Score=162.84  Aligned_cols=162  Identities=20%  Similarity=0.284  Sum_probs=126.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.++.++.+.+.+. ++..+..|..+|...++|++|+||||||||++++++|+.++.+++.++.+++..     
T Consensus        14 ~f~di~G~~~~~~~l~e~v~-~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~   92 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVE-FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGV   92 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHH-HHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTH
T ss_pred             CHHHhCCcHHHHHHHHHHHH-HhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcc
Confidence            58999999999999977765 466778899999999999999999999999999999999999999999877532     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                       ...++..|..+  ..+++|||||+|.+.                                             + .+++
T Consensus        93 ~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~all  172 (476)
T 2ce7_A           93 GAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALL  172 (476)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGG
T ss_pred             cHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhc
Confidence             23455666655  478999999998750                                             0 0678


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |+|||+..+.++.|+..+|..|+..++..........+..+.. ..|++++++.++|.
T Consensus       173 R~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~  230 (476)
T 2ce7_A          173 RPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVN  230 (476)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             ccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHH
Confidence            8999999999999999999999988776432111111222333 25889999888763

>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=99.84  E-value=4e-20  Score=153.37  Aligned_cols=160  Identities=18%  Similarity=0.221  Sum_probs=124.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+++++.+.+.+......+..+.. +...+.|+|||||||||||++|+++|+.++.+++.++.+.+..     
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~   94 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE   94 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGG
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccch
Confidence            5899999999999999988877777666554 3445678999999999999999999999999999999876522     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccch-------------------------------------------h-hhhhc
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLTL-------------------------------------------H-ILLRS  108 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~~-------------------------------------------~-a~~r~  108 (204)
                       ...+..+|..+  ..+++|||||+|.+..                                           + ++.| 
T Consensus        95 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~-  173 (322)
T 3eie_A           95 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR-  173 (322)
T ss_dssp             HHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHH-
T ss_pred             HHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHc-
Confidence             23445555554  4679999999997610                                           0 5555 


Q ss_pred             cccceeEecCCCCHHHHHHHHHHhhCCCCCC-cHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNYFGITEHP-LLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                       ||+..+.++.|+..++..++..++...... ....+..+... .+++++++..+|.
T Consensus       174 -Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          174 -RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             -HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             -ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence             999999999999999999999888755333 33445555554 5789999998884

>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=99.84  E-value=3.4e-20  Score=161.78  Aligned_cols=163  Identities=15%  Similarity=0.202  Sum_probs=130.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++++.+.+...+..++.|..+|.+.+.++|||||||||||++|+++++.++.+++.++++.+..     
T Consensus       202 ~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~  281 (489)
T 3hu3_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  281 (489)
T ss_dssp             CGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTH
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcch
Confidence            478999999999999999999899999999999999999999999999999999999999999999999876532     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc------------------------------------------hh-hhhhcc
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT------------------------------------------LH-ILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~------------------------------------------~~-a~~r~~  109 (204)
                       ...+...|..+  ..+++|||||+|.+.                                          ++ ++.|++
T Consensus       282 ~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~g  361 (489)
T 3hu3_A          282 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  361 (489)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTT
T ss_pred             hHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCC
Confidence             23455666665  367899999996540                                          11 667779


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      ||+..+.++.|+..++..++..+...........+..+.. ..+++++++..++.
T Consensus       362 Rf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~~L~~  416 (489)
T 3hu3_A          362 RFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS  416 (489)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             cCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHHHHHH
Confidence            9999999999999999999988876432222222333333 36889999888773

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.83  E-value=5.9e-20  Score=147.36  Aligned_cols=161  Identities=18%  Similarity=0.265  Sum_probs=117.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++.+.+.+.. +..+..+..++...+.|++|+||||||||++++++++.++.+++.++.+.+..     
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~~~   88 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV   88 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCC
T ss_pred             CHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhhhh
Confidence            589999999999999776653 55556677778888889999999999999999999999999999998877632     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                       ...+..+|..+  ..+++++|||+|.+.                                             + .++.
T Consensus        89 ~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~l~  168 (257)
T 1lv7_A           89 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALL  168 (257)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGG
T ss_pred             hHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHHHc
Confidence             34556666665  357899999996540                                             0 1677


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQL  162 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~  162 (204)
                      |++||+..+.++.|+..++..++..++.............+.. ..|++++++.+++
T Consensus       169 r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~  225 (257)
T 1lv7_A          169 RPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLV  225 (257)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             CCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHH
Confidence            8899999999999999999999888765432111111222222 2567888888776

>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=99.83  E-value=1.6e-19  Score=151.85  Aligned_cols=159  Identities=18%  Similarity=0.233  Sum_probs=124.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+.+++.+.+.+...+..+..|.. +...+.|+|||||||||||++|+++|+.++.+++.++.+.+.      
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~  127 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE  127 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcch
Confidence            5899999999999999988877777766654 445567899999999999999999999999999999877652      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc--------------h-----------------------------h-hhhhc
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT--------------L-----------------------------H-ILLRS  108 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~--------------~-----------------------------~-a~~r~  108 (204)
                      ....+..+|..+  ..+++|||||+|.+.              .                             + +++| 
T Consensus       128 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~r-  206 (355)
T 2qp9_X          128 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR-  206 (355)
T ss_dssp             CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHH-
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHc-
Confidence            224455566554  378999999999862              0                             0 5555 


Q ss_pred             cccceeEecCCCCHHHHHHHHHHhhCCCCCC-cHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          109 SCMDMHIHMSYCTPFRFKMLASNYFGITEHP-LLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       109 ~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                       ||+..+.++.|+..++..++..++...... ....+..+... .|++++++..+|
T Consensus       207 -Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          207 -RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             -ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence             999999999999999999999887654332 23345555543 578999999888

>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=99.81  E-value=4.5e-19  Score=141.98  Aligned_cols=162  Identities=20%  Similarity=0.256  Sum_probs=121.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc----C-
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK----E-   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~----~-   75 (204)
                      +|++++|.++.+..+.+... .+..+..+..+++..+.|++|+||||||||++++++++.++..++.++...+.    . 
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~-~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~   92 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV   92 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTH
T ss_pred             CHHHhCCcHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHhhH
Confidence            58999999999999866544 45677889999999999999999999999999999999999888888765432    1 


Q ss_pred             -hHHHHHHHHhcC--CCeEEEEecCCccc------------------------h----------------------hhhh
Q 041769           76 -NMELRNMLIATK--NKSILVVGDIDYLT------------------------L----------------------HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~~--~~~il~iDeid~~~------------------------~----------------------~a~~  106 (204)
                       ...+..+|+...  .++++++||+|.+.                        +                      .+++
T Consensus        93 ~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~  172 (254)
T 1ixz_A           93 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  172 (254)
T ss_dssp             HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGG
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHc
Confidence             234556666653  57899999997540                        0                      0788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      |++||+..+.++.|+.+++..++..+...........+..+... .+++++++.+++.
T Consensus       173 r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~  230 (254)
T 1ixz_A          173 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  230 (254)
T ss_dssp             STTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            88999999999999999999998877643211111112233332 5778888888773

>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=99.81  E-value=7.6e-19  Score=151.75  Aligned_cols=160  Identities=19%  Similarity=0.270  Sum_probs=121.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-CCceEEeecCCccC----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-NFDVYDLELTTFKE----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-~~~~~~~~~~~~~~----   75 (204)
                      +|++++|.+.+++.+.+.+...+..+..|.. +...++|+|||||||||||++|+++|+.+ +.+++.++.+.+..    
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g  210 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLG  210 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC--------
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcc
Confidence            5899999999999998888777766666553 23456889999999999999999999999 88999998877632    


Q ss_pred             --hHHHHHHHHhc--CCCeEEEEecCCccc-------------------------------------------hh-hhhh
Q 041769           76 --NMELRNMLIAT--KNKSILVVGDIDYLT-------------------------------------------LH-ILLR  107 (204)
Q Consensus        76 --~~~~~~~~~~~--~~~~il~iDeid~~~-------------------------------------------~~-a~~r  107 (204)
                        ...+..+|..+  ..+++|||||+|.+.                                           ++ +++|
T Consensus       211 ~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~r  290 (444)
T 2zan_A          211 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR  290 (444)
T ss_dssp             -CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHT
T ss_pred             hHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHh
Confidence              23455566554  468999999999760                                           00 5555


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCC-cHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHP-LLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                        ||+..+.++.|+..++..++..++...... ....+..+... .|++++++..+|.
T Consensus       291 --Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          291 --RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             --TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             --hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              999999999999999999999887654322 23345555543 6899999999883

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.81  E-value=3e-19  Score=155.86  Aligned_cols=162  Identities=21%  Similarity=0.267  Sum_probs=124.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.++.+..+.+.+. ++..+..+..+++..+.|++|+||||||||++++++++.++.+++.++.+++..     
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~-~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g~  107 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV  107 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHH-HHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTTH
T ss_pred             CHHHcCCcHHHHHHHHHHHH-HhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhhh
Confidence            58999999999999876654 456667788889988999999999999999999999999999999999877632     


Q ss_pred             -hHHHHHHHHhcC--CCeEEEEecCCccc-----------------hh-----------------------------hhh
Q 041769           76 -NMELRNMLIATK--NKSILVVGDIDYLT-----------------LH-----------------------------ILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~~--~~~il~iDeid~~~-----------------~~-----------------------------a~~  106 (204)
                       ...+..+|..+.  .+++++|||+|.+.                 ++                             +++
T Consensus       108 ~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLl  187 (499)
T 2dhr_A          108 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  187 (499)
T ss_dssp             HHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTS
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccc
Confidence             134556666653  57899999998651                 00                             788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |++||+..+.++.|+..+|..|+..+...........+..+.. ..|++++++.+++.
T Consensus       188 r~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~  245 (499)
T 2dhr_A          188 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  245 (499)
T ss_dssp             STTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHH
T ss_pred             cccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            8999999999999999999999988765321111111222332 25788999888763

>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=99.81  E-value=3.2e-20  Score=149.63  Aligned_cols=161  Identities=21%  Similarity=0.320  Sum_probs=119.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++.+.+.+. ++..++.+..++...+.|++|+||||||||++|+++|+.++.+++.++.+.+..     
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~   87 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGL   87 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHH-HHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSSS
T ss_pred             CHHHhCCcHHHHHHHHHHHH-HHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcch
Confidence            58999999999999987665 467788899999998999999999999999999999999999999888766421     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc-----------------------------------------------h-hh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT-----------------------------------------------L-HI  104 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~-----------------------------------------------~-~a  104 (204)
                       ...+...|..+  ..+++|+|||+|.+.                                               + .+
T Consensus        88 ~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~~  167 (268)
T 2r62_A           88 GASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPA  167 (268)
T ss_dssp             CSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCGG
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCHh
Confidence             11222333332  357899999997540                                               0 16


Q ss_pred             hhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          105 LLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       105 ~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                      +.|++||+..+.++.|+.+++..++..++..........+..+... .+++++++.+++
T Consensus       168 l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~  226 (268)
T 2r62_A          168 LMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANII  226 (268)
T ss_dssp             GGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHH
T ss_pred             HcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHH
Confidence            7778999999999999999999999887754321111112222222 467787877765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.79  E-value=2.6e-18  Score=139.43  Aligned_cols=162  Identities=19%  Similarity=0.245  Sum_probs=120.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.++++..+.+... .+..+..+..+++..+.|++|+||||||||++++++++.++..++.++...+.      
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~-~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~  116 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV  116 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTTTH
T ss_pred             CHHHhCChHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHhhH
Confidence            58999999999998866544 45677888999999999999999999999999999999999888888765432      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc------------------------h----------------------hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT------------------------L----------------------HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~------------------------~----------------------~a~~  106 (204)
                      ....+..+|+..  ..++++++||+|.+.                        +                      .+++
T Consensus       117 ~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~  196 (278)
T 1iy2_A          117 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  196 (278)
T ss_dssp             HHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHc
Confidence            113345566654  357899999997530                        0                      0788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh-hCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE-KANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~  163 (204)
                      |++||+..+.++.|+.+++..++..+...........+..+.. ..+++++++.+++.
T Consensus       197 r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~  254 (278)
T 1iy2_A          197 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  254 (278)
T ss_dssp             STTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            8899999999999999999999887764321111111222222 25778888877663

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.77  E-value=7.2e-18  Score=143.13  Aligned_cols=160  Identities=21%  Similarity=0.294  Sum_probs=120.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++.+.+.+......+..+...+. .+.++|||||||||||++|+++|..++.+++.++++.+..     
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~  191 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-PARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE  191 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGC-CCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCC-CCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccch
Confidence            4899999999999998888777666666555553 3578999999999999999999999999999999987643     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc--------------------------------------------hh-hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT--------------------------------------------LH-ILLR  107 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~--------------------------------------------~~-a~~r  107 (204)
                       ...+..+|..+  ..+++|||||+|.+.                                            ++ +++|
T Consensus       192 ~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  271 (389)
T 3vfd_A          192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR  271 (389)
T ss_dssp             CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHc
Confidence             23344555544  367899999998760                                            00 4555


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCCcH-HHHHHHhhh-CCCCHHHHHHHHh
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLL-TEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                        ||+..+.++.|+..++..++..++......+. ..+..+... .+++++++..++.
T Consensus       272 --R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          272 --RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --TCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             --CcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              99999999999999999999887765433332 334444443 5788888877663

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.77  E-value=9.4e-18  Score=137.01  Aligned_cols=160  Identities=18%  Similarity=0.272  Sum_probs=117.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++++|.+.+++.+.+.+......++.+..++ ..+.+++|+||||||||++|+++++.++.+++.++.+.+..     
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~   97 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGD   97 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSC
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccch
Confidence            589999999999999888877666555555444 33678999999999999999999999999999999877632     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------hh-hhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------LH-ILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~~-a~~  106 (204)
                       ...+..++..+  ..+++|+|||+|.+.                                             ++ +++
T Consensus        98 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~  177 (297)
T 3b9p_A           98 GEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAAL  177 (297)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHH
Confidence             12334444433  468999999998760                                             00 344


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCc-HHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPL-LTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      |  ||+..+.++.|+..++..++..++......+ ...+..+... .+++++++..++-
T Consensus       178 ~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~  234 (297)
T 3b9p_A          178 R--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAK  234 (297)
T ss_dssp             H--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             h--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4  8999999999999999999887765432222 2334444433 5888988887763

>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=99.76  E-value=1.1e-17  Score=140.55  Aligned_cols=160  Identities=15%  Similarity=0.263  Sum_probs=119.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      +|++++|.+.+++.+.+.+...+..+..+...+ ..+.++||+||||||||++|+++|+.++.+++.++++.+...    
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~  160 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGE  160 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTH
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccch
Confidence            589999999999999888877666555554443 446789999999999999999999999999999998876431    


Q ss_pred             --HHHHHHHHhc--CCCeEEEEecCCccc--------------------------------------------hh-hhhh
Q 041769           77 --MELRNMLIAT--KNKSILVVGDIDYLT--------------------------------------------LH-ILLR  107 (204)
Q Consensus        77 --~~~~~~~~~~--~~~~il~iDeid~~~--------------------------------------------~~-a~~r  107 (204)
                        ..+..+|..+  ..+++|||||+|.+.                                            ++ +++|
T Consensus       161 ~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  240 (357)
T 3d8b_A          161 GEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR  240 (357)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHh
Confidence              2344444443  468999999997650                                            00 4444


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCCc-HHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHPL-LTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                        ||+..+.++.|+..++..++..++......+ ...+..+... .+++++++..+|-
T Consensus       241 --Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          241 --RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             --TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             --hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              9999999999999999998887765432222 2344444443 5789999888764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.71  E-value=8.7e-17  Score=131.72  Aligned_cols=145  Identities=15%  Similarity=0.145  Sum_probs=96.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|+++.+...+...+.+.+..... +..+...+...+.|+|||||||||||++|+++|+.++.+++.++++.+..     
T Consensus         1 ~~~~~~~~~y~~~~~~~~~~~~~~-k~~l~~~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~   79 (293)
T 3t15_A            1 NLDNKLDGFYIAPAFMDKLVVHIT-KNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGE   79 (293)
T ss_dssp             CCCCEETTEECCHHHHHHHHHHHH-HTTSCCTTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---H
T ss_pred             CcccccCcccCCHHHHHHHHHHHH-HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCch
Confidence            355555555554544443332211 11112235566789999999999999999999999999999999877532     


Q ss_pred             -hHHHHHHHHhc------CCCeEEEEecCCccc-----------------------------------------------
Q 041769           76 -NMELRNMLIAT------KNKSILVVGDIDYLT-----------------------------------------------  101 (204)
Q Consensus        76 -~~~~~~~~~~~------~~~~il~iDeid~~~-----------------------------------------------  101 (204)
                       ...+.+.|..+      ..++||+|||+|.+.                                               
T Consensus        80 ~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI  159 (293)
T 3t15_A           80 PAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPII  159 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEE
T ss_pred             hHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEE
Confidence             23455566554      268999999997550                                               


Q ss_pred             --------h-hhhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh
Q 041769          102 --------L-HILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE  149 (204)
Q Consensus       102 --------~-~a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~  149 (204)
                              + .+++|++||+..+.  .|+.+++..|+..++.... .....+..++.
T Consensus       160 ~ttN~~~~ld~al~R~~R~d~~i~--~P~~~~r~~Il~~~~~~~~-~~~~~l~~~~~  213 (293)
T 3t15_A          160 VTGNDFSTLYAPLIRDGRMEKFYW--APTREDRIGVCTGIFRTDN-VPAEDVVKIVD  213 (293)
T ss_dssp             EECSSCCC--CHHHHHHHEEEEEE--CCCHHHHHHHHHHHHGGGC-CCHHHHHHHHH
T ss_pred             EecCCcccCCHHHhCCCCCceeEe--CcCHHHHHHHHHHhccCCC-CCHHHHHHHhC
Confidence                    0 08888899999887  4799999999887765332 22344555554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.65  E-value=4.4e-15  Score=123.22  Aligned_cols=124  Identities=15%  Similarity=0.238  Sum_probs=100.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|.+..++.+...+......        -....+++|+||||||||++|+++++.++.+++.++...+.....+.
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~   98 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKR--------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLA   98 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHT--------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHH
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHH
Confidence            5889999998888887766644321        12245699999999999999999999999999999998887778888


Q ss_pred             HHHHhcCCCeEEEEecCCccchh------------------------------------------------hhhhccccc
Q 041769           81 NMLIATKNKSILVVGDIDYLTLH------------------------------------------------ILLRSSCMD  112 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~~~~------------------------------------------------a~~r~~R~~  112 (204)
                      ..+.....+++|||||++.+...                                                ++.  .||+
T Consensus        99 ~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~--~R~~  176 (338)
T 3pfi_A           99 AILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLR--DRFG  176 (338)
T ss_dssp             HHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHH--TTCS
T ss_pred             HHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHH--hhcC
Confidence            88888888999999999988211                                                122  3888


Q ss_pred             eeEecCCCCHHHHHHHHHHhhC
Q 041769          113 MHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       113 ~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                      ..+.++.|+..++..++..+..
T Consensus       177 ~~i~l~~~~~~e~~~il~~~~~  198 (338)
T 3pfi_A          177 MQFRLEFYKDSELALILQKAAL  198 (338)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEeeCCCcCHHHHHHHHHHHHH
Confidence            8999999999998888776654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.60  E-value=1.1e-14  Score=119.11  Aligned_cols=128  Identities=16%  Similarity=0.188  Sum_probs=95.4

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCC---ceeEEECCCCCcHHHHHHHHHHhcC-------CceEEeecCCc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWK---HSYFLYGPPGTGKSSLIAAMTNYLN-------FDVYDLELTTF   73 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~---~g~ll~Gp~GtGKT~la~~la~~~~-------~~~~~~~~~~~   73 (204)
                      +++|++.+++.+.+.+..... ...+...|+..+   .+++|+||||||||++|+++|+.++       .+++.++.+.+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            689999999999887776543 455666675443   3599999999999999999999983       37888887766


Q ss_pred             cC------hHHHHHHHHhcCCCeEEEEecCCcc---------chh-----------------------------------
Q 041769           74 KE------NMELRNMLIATKNKSILVVGDIDYL---------TLH-----------------------------------  103 (204)
Q Consensus        74 ~~------~~~~~~~~~~~~~~~il~iDeid~~---------~~~-----------------------------------  103 (204)
                      ..      ...+...|... .+++|+|||+|.+         +..                                   
T Consensus       111 ~~~~~g~~~~~~~~~~~~~-~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~  189 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA-MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNP  189 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH-TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHST
T ss_pred             hhhcccccHHHHHHHHHhc-CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCH
Confidence            32      23345555554 5689999999955         000                                   


Q ss_pred             hhhhccccceeEecCCCCHHHHHHHHHHhhCC
Q 041769          104 ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus       104 a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~  135 (204)
                      ++.  .||+..+.|+.|+.+++..++..++..
T Consensus       190 ~l~--~R~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          190 GFR--SRIAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             THH--HHEEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             HHH--HhCCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            222  399999999999999999988877653

>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=99.59  E-value=3.1e-14  Score=117.17  Aligned_cols=154  Identities=19%  Similarity=0.231  Sum_probs=108.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|.+..+..+...+......       + ..+.+++|+||||||||++|+++++.++.+++.++.+.+.....+.
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~-------~-~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~l~   81 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKAR-------K-EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLA   81 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHH-------C-SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHHHHH
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHcc-------C-CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChHHHH
Confidence            5889999988888876666544221       1 1245699999999999999999999999999999988887777777


Q ss_pred             HHHHh-cCCCeEEEEecCCccchh---hh----------------------------------------hh---ccccce
Q 041769           81 NMLIA-TKNKSILVVGDIDYLTLH---IL----------------------------------------LR---SSCMDM  113 (204)
Q Consensus        81 ~~~~~-~~~~~il~iDeid~~~~~---a~----------------------------------------~r---~~R~~~  113 (204)
                      ..+.. ...+++|+|||++.+...   .+                                        ++   .+|++.
T Consensus        82 ~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~  161 (324)
T 1hqc_A           82 AILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGI  161 (324)
T ss_dssp             HHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSC
T ss_pred             HHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccE
Confidence            77776 577899999999998221   00                                        00   147877


Q ss_pred             eEecCCCCHHHHHHHHHHhhCCCCCCcH-HHHHHHhhhCCCCHHHHHHHH
Q 041769          114 HIHMSYCTPFRFKMLASNYFGITEHPLL-TEIDELIEKANVTLADVVEQL  162 (204)
Q Consensus       114 ~i~~~~p~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~i~~~~  162 (204)
                      .+.++.|+.+++..++..+.......+. ..+..+.....-.+.++.+++
T Consensus       162 ~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l  211 (324)
T 1hqc_A          162 VEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLF  211 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHH
T ss_pred             EEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHH
Confidence            8999999999988888776643322222 233344443333444544443

>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=99.58  E-value=3.1e-14  Score=117.47  Aligned_cols=154  Identities=17%  Similarity=0.155  Sum_probs=99.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++..+..+.+.+.    .        -..+..++++||||||||++++++++.++.+++.++.+... ...++
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~----~--------~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~-~~~i~   90 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITS----K--------GKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK-IDFVR   90 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHH----T--------TCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC-HHHHH
T ss_pred             CHHHHhCcHHHHHHHHHHHH----c--------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC-HHHHH
Confidence            58899999887776655444    1        12245588889999999999999999999999999987754 34444


Q ss_pred             HHHHh----cC---CCeEEEEecCCccc-hh------------------------------hhhhccccceeEecCCCCH
Q 041769           81 NMLIA----TK---NKSILVVGDIDYLT-LH------------------------------ILLRSSCMDMHIHMSYCTP  122 (204)
Q Consensus        81 ~~~~~----~~---~~~il~iDeid~~~-~~------------------------------a~~r~~R~~~~i~~~~p~~  122 (204)
                      ..+..    ..   .+.+|+|||+|.++ ..                              ++.  .|+. .+.|+.|+.
T Consensus        91 ~~~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~--sR~~-~i~~~~~~~  167 (324)
T 3u61_B           91 GPLTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQ--SRCR-VITFGQPTD  167 (324)
T ss_dssp             THHHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHH--HHSE-EEECCCCCH
T ss_pred             HHHHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHH--hhCc-EEEeCCCCH
Confidence            43332    12   67899999999985 22                              222  2664 589999999


Q ss_pred             HHHHHHHHHhhCCCCCCcHHHHHHHhhhCC--CCHHHHHHHHhcC--CCHHHHHHhHHHH
Q 041769          123 FRFKMLASNYFGITEHPLLTEIDELIEKAN--VTLADVVEQLMRN--KVPEIALRGLTDV  178 (204)
Q Consensus       123 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~i~~~~~~~--~~~~~~~~~~~~~  178 (204)
                      .++..++..+.        ..+...+...+  +++.+....+...  ++.+.+++.+...
T Consensus       168 ~e~~~il~~~~--------~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~  219 (324)
T 3u61_B          168 EDKIEMMKQMI--------RRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSY  219 (324)
T ss_dssp             HHHHHHHHHHH--------HHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHH--------HHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            88777665543        23344444333  3342444444332  3444455544443

>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=99.56  E-value=6.9e-15  Score=127.28  Aligned_cols=91  Identities=21%  Similarity=0.206  Sum_probs=72.1

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC--CceEEeecCCccC----
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN--FDVYDLELTTFKE----   75 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~--~~~~~~~~~~~~~----   75 (204)
                      |++++|+++.++.+...+..+.        .+...++|+|||||||||||++|+++|+.++  .+++.++.+.+..    
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~--------~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~  107 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIK--------SKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIK  107 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSC
T ss_pred             hhhccCHHHHHHHHHHHHHHHH--------hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhh
Confidence            7899999999888766554332        2445568899999999999999999999999  8899999887632    


Q ss_pred             -hHHHHHHHHhc-----CCCeEEEEecCCcc
Q 041769           76 -NMELRNMLIAT-----KNKSILVVGDIDYL  100 (204)
Q Consensus        76 -~~~~~~~~~~~-----~~~~il~iDeid~~  100 (204)
                       ...+.+.|..+     ..+++|||||+|.+
T Consensus       108 ~~~~~~~~f~~a~~~~~~~~~il~iDEid~l  138 (456)
T 2c9o_A          108 KTEVLMENFRRAIGLRIKETKEVYEGEVTEL  138 (456)
T ss_dssp             HHHHHHHHHHHTEEEEEEEEEEEEEEEEEEE
T ss_pred             hhHHHHHHHHHHHhhhhcCCcEEEEechhhc
Confidence             23366777765     36899999999876

>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=99.54  E-value=3.8e-14  Score=124.42  Aligned_cols=132  Identities=14%  Similarity=0.258  Sum_probs=92.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhH-HHHHHhCC---CCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRK-EFYRNVGK---AWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~---~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~   76 (204)
                      +|++++|++..++.+.+.+..+.... ..+...|.   +.+++++|+||||||||++|+++|+.++.+++.+++++....
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~~~  116 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK  116 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCH
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcchH
Confidence            58899999999998888877654322 11222222   234679999999999999999999999999999999887654


Q ss_pred             HHHHHHHH-------------h-------cCCCeEEEEecCCccch------h----------------------hhhhc
Q 041769           77 MELRNMLI-------------A-------TKNKSILVVGDIDYLTL------H----------------------ILLRS  108 (204)
Q Consensus        77 ~~~~~~~~-------------~-------~~~~~il~iDeid~~~~------~----------------------a~~r~  108 (204)
                      ..+...+.             .       ...+.+|+|||+|.+..      .                      ..+++
T Consensus       117 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~iIli~~~~~~~~l~~  196 (516)
T 1sxj_A          117 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRP  196 (516)
T ss_dssp             HHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEEESCTTSSTTGG
T ss_pred             HHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhcCCCEEEEEcCCCCccchh
Confidence            43333222             1       13578999999998721      1                      11111


Q ss_pred             -cccceeEecCCCCHHHHHHHHHHh
Q 041769          109 -SCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus       109 -~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                       .|+...+.|+.|+..++..++...
T Consensus       197 l~~r~~~i~f~~~~~~~~~~~L~~i  221 (516)
T 1sxj_A          197 FDRVCLDIQFRRPDANSIKSRLMTI  221 (516)
T ss_dssp             GTTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             hHhceEEEEeCCCCHHHHHHHHHHH
Confidence             355677899999988876665543

>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=99.51  E-value=2.8e-13  Score=110.44  Aligned_cols=98  Identities=17%  Similarity=0.341  Sum_probs=68.8

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHh-CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC------
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNV-GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE------   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~------   75 (204)
                      ++++|++..+..+...+...+......... +-..+.+++|+||||||||++|+++++.++.+++.++++.+..      
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            358899999888877776533221100000 0123467999999999999999999999999999999877542      


Q ss_pred             --hHHHHHHHHhc-------CCCeEEEEecCCcc
Q 041769           76 --NMELRNMLIAT-------KNKSILVVGDIDYL  100 (204)
Q Consensus        76 --~~~~~~~~~~~-------~~~~il~iDeid~~  100 (204)
                        ...+...+...       ..+++|+|||+|.+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l  128 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKI  128 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGG
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhc
Confidence              13345555433       24789999999987

>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=99.46  E-value=4.7e-14  Score=118.48  Aligned_cols=97  Identities=21%  Similarity=0.284  Sum_probs=68.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHH-HHhCC-CCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh-----
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFY-RNVGK-AWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN-----   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~~-~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~-----   76 (204)
                      .++|++..++.+...+.......... ...+. ..+.+++|+||||||||++|+++|+.++.+++.++++.+...     
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            36899988888877776544322210 00111 134679999999999999999999999999999998776422     


Q ss_pred             ---HHHHHHHHhc------CCCeEEEEecCCcc
Q 041769           77 ---MELRNMLIAT------KNKSILVVGDIDYL  100 (204)
Q Consensus        77 ---~~~~~~~~~~------~~~~il~iDeid~~  100 (204)
                         ..+...+...      ..+++|||||+|.+
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l  128 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKI  128 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHH
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhh
Confidence               2334444443      25789999999965

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.46  E-value=1e-12  Score=109.97  Aligned_cols=61  Identities=20%  Similarity=0.210  Sum_probs=44.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC--ceEEeec
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF--DVYDLEL   70 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~--~~~~~~~   70 (204)
                      |++++|++..+..+.........        +...+.+++|+||||||||++|+++++.++.  +++.++.
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~--------~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~  105 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIRE--------GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAG  105 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHT--------TCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEG
T ss_pred             hhhccChHHHHHHHHHHHHHHHc--------CCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccc
Confidence            88999998887776433332211        3333568999999999999999999999975  5555553

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.43  E-value=3e-12  Score=110.48  Aligned_cols=121  Identities=21%  Similarity=0.290  Sum_probs=83.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++...... ..+...+...         ...+++||||||||||++|++|++.++.+++.++.... +...++
T Consensus        24 ~l~~ivGq~~~~~~~-~~L~~~i~~~---------~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~-~~~~ir   92 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAG-KPLPRAIEAG---------HLHSMILWGPPGTGKTTLAEVIARYANADVERISAVTS-GVKEIR   92 (447)
T ss_dssp             STTTCCSCHHHHSTT-SHHHHHHHHT---------CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTC-CHHHHH
T ss_pred             CHHHhCCcHHHHhch-HHHHHHHHcC---------CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccC-CHHHHH
Confidence            478899997665211 1222222211         12569999999999999999999999999999987653 334455


Q ss_pred             HHHHhc------CCCeEEEEecCCccchh------------------------------hhhhccccceeEecCCCCHHH
Q 041769           81 NMLIAT------KNKSILVVGDIDYLTLH------------------------------ILLRSSCMDMHIHMSYCTPFR  124 (204)
Q Consensus        81 ~~~~~~------~~~~il~iDeid~~~~~------------------------------a~~r~~R~~~~i~~~~p~~~~  124 (204)
                      ..+..+      ..+++|||||+|.++.+                              ++++  |+. .+.+..|+.++
T Consensus        93 ~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~s--R~~-v~~l~~l~~ed  169 (447)
T 3pvs_A           93 EAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLS--RAR-VYLLKSLSTED  169 (447)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHT--TEE-EEECCCCCHHH
T ss_pred             HHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhC--cee-EEeeCCcCHHH
Confidence            444443      46899999999998211                              3333  665 57789999998


Q ss_pred             HHHHHHHhhCC
Q 041769          125 FKMLASNYFGI  135 (204)
Q Consensus       125 ~~~i~~~~~~~  135 (204)
                      +..++.+++..
T Consensus       170 i~~il~~~l~~  180 (447)
T 3pvs_A          170 IEQVLTQAMED  180 (447)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            88887776543

>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=99.43  E-value=7.3e-12  Score=100.86  Aligned_cols=94  Identities=23%  Similarity=0.277  Sum_probs=63.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc-C------h
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK-E------N   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~-~------~   76 (204)
                      .+++.+...+.+........   ..+...+...+.+++|+||||||||++|+++++.++.+++.++.++.. +      .
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~---~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~  110 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKC  110 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHH---HHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHH---HHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHH
Confidence            45566555555544322221   223333455567899999999999999999999999999998776421 1      1


Q ss_pred             HHHHHHHHhc--CCCeEEEEecCCcc
Q 041769           77 MELRNMLIAT--KNKSILVVGDIDYL  100 (204)
Q Consensus        77 ~~~~~~~~~~--~~~~il~iDeid~~  100 (204)
                      ..+...+..+  ..+++|+|||+|.+
T Consensus       111 ~~~~~~~~~~~~~~~~vl~iDEid~l  136 (272)
T 1d2n_A          111 QAMKKIFDDAYKSQLSCVVVDDIERL  136 (272)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHH
T ss_pred             HHHHHHHHHHHhcCCcEEEEEChhhh
Confidence            3345555553  46899999999875

>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=99.41  E-value=7.8e-12  Score=103.91  Aligned_cols=92  Identities=18%  Similarity=0.333  Sum_probs=64.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++.++..+    ...+.....   .+ ..+..++|+||||+||||+++++|+.++.++...+........++.
T Consensus        23 ~l~~~~g~~~~~~~l----~~~i~~~~~---~~-~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~~~l~   94 (334)
T 1in4_A           23 SLDEFIGQENVKKKL----SLALEAAKM---RG-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA   94 (334)
T ss_dssp             SGGGCCSCHHHHHHH----HHHHHHHHH---HT-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHH
T ss_pred             cHHHccCcHHHHHHH----HHHHHHHHh---cC-CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCHHHHH
Confidence            467888886555544    333322110   01 1235699999999999999999999999887776665555555666


Q ss_pred             HHHHhcCCCeEEEEecCCcc
Q 041769           81 NMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~  100 (204)
                      ..+.......+++|||++.+
T Consensus        95 ~~~~~~~~~~v~~iDE~~~l  114 (334)
T 1in4_A           95 AILTSLERGDVLFIDEIHRL  114 (334)
T ss_dssp             HHHHHCCTTCEEEEETGGGC
T ss_pred             HHHHHccCCCEEEEcchhhc
Confidence            66666667789999999987

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.41  E-value=8.7e-13  Score=99.44  Aligned_cols=87  Identities=18%  Similarity=0.362  Sum_probs=61.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|++++|.++....+.+.+..             ..+.+++|+||||||||++++++++.+          +.+++.+++
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             cccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeH
Confidence            478888887766665444321             225679999999999999999999997          678888876


Q ss_pred             CCccC----h----HHHHHHHH---hcCCCeEEEEecCCcc
Q 041769           71 TTFKE----N----MELRNMLI---ATKNKSILVVGDIDYL  100 (204)
Q Consensus        71 ~~~~~----~----~~~~~~~~---~~~~~~il~iDeid~~  100 (204)
                      ..+..    .    ..+...+.   ....+.+|+|||+|.+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l  127 (195)
T 1jbk_A           87 GALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGG
T ss_pred             HHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHH
Confidence            55421    1    12333333   2346789999999987

>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=99.41  E-value=8.7e-12  Score=96.02  Aligned_cols=117  Identities=19%  Similarity=0.192  Sum_probs=78.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~   75 (204)
                      +|++++|.+.....+.+.+.    ..         ...+++|+||||+|||++++.+++.+     ...++.++.+....
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~----~~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVE----RK---------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG   81 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHH----TT---------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTC
T ss_pred             CHHHHcCcHHHHHHHHHHHh----CC---------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccC
Confidence            47888888877766655443    11         12349999999999999999999986     34577777766555


Q ss_pred             hHHHHHHHHhc--------CCCeEEEEecCCccchh------------------------------hhhhccccceeEec
Q 041769           76 NMELRNMLIAT--------KNKSILVVGDIDYLTLH------------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~~~~~--------~~~~il~iDeid~~~~~------------------------------a~~r~~R~~~~i~~  117 (204)
                      ...+...+...        ..+.+|+|||++.+...                              ++.  .|+. .+.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~--~r~~-~i~~  158 (226)
T 2chg_A           82 IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQ--SRCA-VFRF  158 (226)
T ss_dssp             HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH--TTSE-EEEC
T ss_pred             hHHHHHHHHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHH--HhCc-eeec
Confidence            44443333221        46789999999998211                              222  2665 6788


Q ss_pred             CCCCHHHHHHHHHHhh
Q 041769          118 SYCTPFRFKMLASNYF  133 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~~  133 (204)
                      +.++..+...++..+.
T Consensus       159 ~~~~~~~~~~~l~~~~  174 (226)
T 2chg_A          159 KPVPKEAMKKRLLEIC  174 (226)
T ss_dssp             CCCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            8888877766665443

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.40  E-value=4.3e-12  Score=103.67  Aligned_cols=92  Identities=15%  Similarity=0.318  Sum_probs=61.7

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCC-ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWK-HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM   77 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~-~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~   77 (204)
                      ++++|++..++.+...+......      +.- ..+ ..++|+||||||||++|+++++.+   +.+++.++++.+....
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~------~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~   90 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAG------LKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH   90 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHT------CSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTT
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcC------CCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccc
Confidence            46778887777776666543210      011 112 359999999999999999999998   4568888887765432


Q ss_pred             HHHHHHH------------------hcCCCeEEEEecCCcc
Q 041769           78 ELRNMLI------------------ATKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~~~~~~~------------------~~~~~~il~iDeid~~  100 (204)
                      .....+.                  ....+++++|||+|.+
T Consensus        91 ~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           91 AVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             HHHHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             cHHHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhc
Confidence            2222221                  1134689999999998

>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=99.39  E-value=1e-11  Score=99.58  Aligned_cols=91  Identities=13%  Similarity=0.210  Sum_probs=60.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENM   77 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~   77 (204)
                      +|++++|.+.....+.+.+.....           .+.+++|+||||||||++|++++..++   .+++.++++.+....
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~~-----------~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~   72 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENL   72 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHTT-----------SCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHH
T ss_pred             ccccceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhH
Confidence            589999998888877666654321           235699999999999999999999885   579999988764221


Q ss_pred             HHHHHHHh-----------------cCCCeEEEEecCCccch
Q 041769           78 ELRNMLIA-----------------TKNKSILVVGDIDYLTL  102 (204)
Q Consensus        78 ~~~~~~~~-----------------~~~~~il~iDeid~~~~  102 (204)
                      -...+|..                 ...+++|+|||++.++.
T Consensus        73 ~~~~l~g~~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~  114 (265)
T 2bjv_A           73 LDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM  114 (265)
T ss_dssp             HHHHHHCCC---------CCCCHHHHTTTSEEEEESGGGSCH
T ss_pred             HHHHhcCCcccccccccccccchhhhcCCcEEEEechHhcCH
Confidence            11111110                 12468999999999843

>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=99.38  E-value=7.2e-12  Score=114.48  Aligned_cols=121  Identities=12%  Similarity=0.287  Sum_probs=84.7

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCC---CCc-eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh---
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA---WKH-SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN---   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~-g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~---   76 (204)
                      .++|++..+..+...+...        ..|..   .+. +++|+||||||||++|+++++.++.+++.++++.+...   
T Consensus       459 ~v~g~~~~~~~l~~~i~~~--------~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~  530 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMA--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTV  530 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHH--------HTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCC
T ss_pred             hccCHHHHHHHHHHHHHHH--------hcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhH
Confidence            4667776666665544322        12332   122 59999999999999999999999999999998876431   


Q ss_pred             ----------------HHHHHHHHhcCCCeEEEEecCCccchh----------------------------------h--
Q 041769           77 ----------------MELRNMLIATKNKSILVVGDIDYLTLH----------------------------------I--  104 (204)
Q Consensus        77 ----------------~~~~~~~~~~~~~~il~iDeid~~~~~----------------------------------a--  104 (204)
                                      ..+...+.. ..+++|+|||++.+..+                                  .  
T Consensus       531 ~~l~g~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~  609 (758)
T 1r6b_X          531 SRLIGAPPGYVGFDQGGLLTDAVIK-HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGV  609 (758)
T ss_dssp             SSSCCCCSCSHHHHHTTHHHHHHHH-CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSC
T ss_pred             hhhcCCCCCCcCccccchHHHHHHh-CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcch
Confidence                            112333333 45799999999988111                                  0  


Q ss_pred             -------------------------hhhc---cccceeEecCCCCHHHHHHHHHHhh
Q 041769          105 -------------------------LLRS---SCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       105 -------------------------~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                                               .++|   +||+..+.|+.++.+++..++..++
T Consensus       610 ~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l  666 (758)
T 1r6b_X          610 RETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFI  666 (758)
T ss_dssp             C-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHH
Confidence                                     2222   6998889999999999888887765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.37  E-value=6.8e-12  Score=114.72  Aligned_cols=161  Identities=15%  Similarity=0.201  Sum_probs=102.5

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC---CCc-eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA---WKH-SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~-g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~   75 (204)
                      ++++|++..++.+...+.....        +..   .+. +++|+||||||||++|+++++.+   +.+++.++++.+..
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            4577888777777666654321        211   122 59999999999999999999998   67899999988753


Q ss_pred             h-----HHHHHHHHhcCCCeEEEEecCCccchh-----------------------------------------------
Q 041769           76 N-----MELRNMLIATKNKSILVVGDIDYLTLH-----------------------------------------------  103 (204)
Q Consensus        76 ~-----~~~~~~~~~~~~~~il~iDeid~~~~~-----------------------------------------------  103 (204)
                      .     ..+...+.. ..+++|||||++.+...                                               
T Consensus       563 ~~~~~~~~l~~~~~~-~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~  641 (758)
T 3pxi_A          563 KHSTSGGQLTEKVRR-KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGEL  641 (758)
T ss_dssp             SCCCC---CHHHHHH-CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHH
T ss_pred             ccccccchhhHHHHh-CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHH
Confidence            2     223333322 45789999999998111                                               


Q ss_pred             -hhhhc---cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhh----hCCCCHHHHHHHHhc-CCCHHHHHHh
Q 041769          104 -ILLRS---SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIE----KANVTLADVVEQLMR-NKVPEIALRG  174 (204)
Q Consensus       104 -a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~----~~~l~~~~i~~~~~~-~~~~~~~~~~  174 (204)
                       ..++|   +|++..+.|+.|+.+++..++..++.        .+...+.    ...++++. .+++.. ..+.....|.
T Consensus       642 ~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~--------~~~~~~~~~~~~~~~~~~a-~~~l~~~~~~~~~~~R~  712 (758)
T 3pxi_A          642 KRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSD--------QLTKRLKEQDLSIELTDAA-KAKVAEEGVDLEYGARP  712 (758)
T ss_dssp             HHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHH--------HHHHHHHTTTCEEEECHHH-HHHHHGGGCCTTTTTTT
T ss_pred             HhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHH--------HHHHHHHhCCCeEEECHHH-HHHHHHhCCCCCCCChH
Confidence             11344   79999999999999998888876652        2222222    12345444 444433 3444445666


Q ss_pred             HHHHHHh
Q 041769          175 LTDVFKI  181 (204)
Q Consensus       175 ~~~~~~~  181 (204)
                      +.+.++.
T Consensus       713 L~~~i~~  719 (758)
T 3pxi_A          713 LRRAIQK  719 (758)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666654

>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=99.36  E-value=3.4e-12  Score=99.95  Aligned_cols=62  Identities=19%  Similarity=0.353  Sum_probs=46.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.+++|+||||||||++++++++.+.   .++..++...+...  +.+.+.....+.+|+|||++.+
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vliiDe~~~~  116 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASI--STALLEGLEQFDLICIDDVDAV  116 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGS--CGGGGTTGGGSSEEEEETGGGG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH--HHHHHHhccCCCEEEEeccccc
Confidence            56799999999999999999999884   67888887664321  1122233356789999999987

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.35  E-value=1.3e-11  Score=101.97  Aligned_cols=99  Identities=11%  Similarity=0.164  Sum_probs=69.5

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecCCccC----------------------hHHHHHH
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELTTFKE----------------------NMELRNM   82 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~~~~~----------------------~~~~~~~   82 (204)
                      ..+.+++|+||||||||++++.+++.+          ...++.+++..+.+                      ...+.+.
T Consensus        43 ~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~  122 (318)
T 3te6_A           43 SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFY  122 (318)
T ss_dssp             TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Confidence            346779999999999999999999999          34677788655422                      1234555


Q ss_pred             HHhc----CCCeEEEEecCCccc---------------------------hh---hhhh---ccccc-eeEecCCCCHHH
Q 041769           83 LIAT----KNKSILVVGDIDYLT---------------------------LH---ILLR---SSCMD-MHIHMSYCTPFR  124 (204)
Q Consensus        83 ~~~~----~~~~il~iDeid~~~---------------------------~~---a~~r---~~R~~-~~i~~~~p~~~~  124 (204)
                      |...    ..+.++++||+|.+.                           +.   ..+.   .+|+. ..+.|+.++..+
T Consensus       123 f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~e  202 (318)
T 3te6_A          123 ITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNE  202 (318)
T ss_dssp             HHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHH
T ss_pred             HHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHH
Confidence            6553    357899999999981                           00   1111   13775 578999999999


Q ss_pred             HHHHHHHhh
Q 041769          125 FKMLASNYF  133 (204)
Q Consensus       125 ~~~i~~~~~  133 (204)
                      ...|+.+.+
T Consensus       203 l~~Il~~Rl  211 (318)
T 3te6_A          203 LQQMIITRL  211 (318)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887766543

>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=99.35  E-value=6.5e-12  Score=110.87  Aligned_cols=119  Identities=18%  Similarity=0.239  Sum_probs=80.6

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh------
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN------   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~------   76 (204)
                      +++|.++++..+.+.+.        +..+... .+..++|+||||||||++++++++.++.++..++++++...      
T Consensus        82 di~G~~~vk~~i~~~~~--------l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~  153 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLA--------VQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGH  153 (543)
T ss_dssp             HCSSCHHHHHHHHHHHH--------HHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC----------
T ss_pred             HhccHHHHHHHHHHHHH--------HHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhH
Confidence            46777766666543322        2222222 24469999999999999999999999999999988764321      


Q ss_pred             ---------HHHHHHHHhcC-CCeEEEEecCCccch---------------------------------h----------
Q 041769           77 ---------MELRNMLIATK-NKSILVVGDIDYLTL---------------------------------H----------  103 (204)
Q Consensus        77 ---------~~~~~~~~~~~-~~~il~iDeid~~~~---------------------------------~----------  103 (204)
                               ..+...|..+. .+.++||||+|.+..                                 +          
T Consensus       154 ~~~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~  233 (543)
T 3m6a_A          154 RRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANN  233 (543)
T ss_dssp             ----------CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSS
T ss_pred             HHHHhccCchHHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCc
Confidence                     12233344442 456999999998710                                 0          


Q ss_pred             ------hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 ------ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 ------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                            ++++  ||+ .+.++.|+.+++..++.+++
T Consensus       234 ~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          234 LATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             TTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTH
T ss_pred             cccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHH
Confidence                  4444  885 58999999999988888765

>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=99.32  E-value=1.5e-11  Score=103.52  Aligned_cols=98  Identities=21%  Similarity=0.323  Sum_probs=68.6

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHH----------------HHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFY----------------RNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~----------------~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      +.|+|++..++.+...+...+.....-                ...+ ...+.+++|+||||||||++|+++|+.++.++
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~  100 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI  100 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            357999999999887775443322210                0011 12345699999999999999999999999999


Q ss_pred             EEeecCCccC--------hHHHHHHHHhcC------CCeEEEEecCCcc
Q 041769           66 YDLELTTFKE--------NMELRNMLIATK------NKSILVVGDIDYL  100 (204)
Q Consensus        66 ~~~~~~~~~~--------~~~~~~~~~~~~------~~~il~iDeid~~  100 (204)
                      +.+++..+..        ...+...+....      .+++|+|||++.+
T Consensus       101 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l  149 (376)
T 1um8_A          101 AISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKI  149 (376)
T ss_dssp             EEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC
T ss_pred             EEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHH
Confidence            9999877531        123344444332      5789999999987

>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=99.32  E-value=1.3e-10  Score=90.32  Aligned_cols=118  Identities=17%  Similarity=0.349  Sum_probs=75.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      .|++++|.+...+.+...+..           + ..+..++|+||||+|||++++.+++.++.                 
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   88 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            367888887777766554431           1 11346999999999999999999998743                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhcC------CCeEEEEecCCccchh---------------------------
Q 041769           64 -------DVYDLELTTFKENMELRNMLIATK------NKSILVVGDIDYLTLH---------------------------  103 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~~------~~~il~iDeid~~~~~---------------------------  103 (204)
                             .++.++.........+...+....      .+.+|+|||++.+...                           
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~  168 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  168 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence                   223333333223344556655542      4689999999987211                           


Q ss_pred             ---hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 ---ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 ---a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                         .+.+  |+ ..+.++.++..+...++..++
T Consensus       169 ~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~  198 (250)
T 1njg_A          169 LPVTILS--RC-LQFHLKALDVEQIRHQLEHIL  198 (250)
T ss_dssp             SCHHHHT--TS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             CCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHH
Confidence               1111  32 467788888877776666544

>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=99.32  E-value=2.9e-12  Score=110.05  Aligned_cols=121  Identities=14%  Similarity=0.192  Sum_probs=61.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC------
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE------   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~------   75 (204)
                      +.|+|+++.++.+...+...+.+...+..+... .+.+++|+||||||||++++++|+.++.+++.++.+.+..      
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            468999999999988887665555444333332 3578999999999999999999999999999999865422      


Q ss_pred             --hHHHHHHHHhcC------------------------CCeEEEEecCCcc-------c-----h-hhhhhccccceeEe
Q 041769           76 --NMELRNMLIATK------------------------NKSILVVGDIDYL-------T-----L-HILLRSSCMDMHIH  116 (204)
Q Consensus        76 --~~~~~~~~~~~~------------------------~~~il~iDeid~~-------~-----~-~a~~r~~R~~~~i~  116 (204)
                        ...++.+|..+.                        ..-+-.+|.+..-       |     + .++.|++|||..|+
T Consensus        95 d~e~~lr~lf~~a~~~~~~De~d~~~~~~~~~~e~rvl~~LL~~~dg~~~~~~v~a~~TN~~~~ld~aL~rggr~D~~i~  174 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKLVRQQEIAKNRARAEDVAEERILDALLPPAKNQWGEVENHDSHSSTRQAFRKKLREGQLDDKEIE  174 (444)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHSCC------------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhcchhhhhhhhhccchhhHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHcCCCcceEEE
Confidence              233444443320                        0001112222110       0     1 17888999999999


Q ss_pred             cCCCCHH
Q 041769          117 MSYCTPF  123 (204)
Q Consensus       117 ~~~p~~~  123 (204)
                      ++.|+..
T Consensus       175 i~lP~~~  181 (444)
T 1g41_A          175 IDVSAGV  181 (444)
T ss_dssp             -------
T ss_pred             EcCCCCc
Confidence            9999986

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.32  E-value=8.2e-12  Score=103.25  Aligned_cols=117  Identities=12%  Similarity=0.134  Sum_probs=79.1

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRN   81 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~   81 (204)
                      +++++|+++.+..+...+..               +.+++|+||||||||++++++++.++.+++.++........++..
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g   90 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIG   90 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHE
T ss_pred             ccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCC
Confidence            45677776665554333221               356999999999999999999999999998888643222111110


Q ss_pred             H--HH------hc-C---CCeEEEEecCCccch---------------------------------------------h-
Q 041769           82 M--LI------AT-K---NKSILVVGDIDYLTL---------------------------------------------H-  103 (204)
Q Consensus        82 ~--~~------~~-~---~~~il~iDeid~~~~---------------------------------------------~-  103 (204)
                      .  +.      .. .   ..++++|||++.++.                                             + 
T Consensus        91 ~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~~l~~  170 (331)
T 2r44_A           91 TMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTYPLPE  170 (331)
T ss_dssp             EEEEETTTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCCCCCH
T ss_pred             ceeecCCCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcccCCH
Confidence            0  00      00 1   137999999998811                                             1 


Q ss_pred             hhhhccccceeEecCCCCHHHHHHHHHHhhCC
Q 041769          104 ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus       104 a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~  135 (204)
                      +++  .||+..+.++.|+.+++..++..+...
T Consensus       171 ~l~--~Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          171 AQV--DRFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             HHH--TTSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             HHH--hheeEEEEcCCCCHHHHHHHHHhcccc
Confidence            222  489889999999999999888877653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.31  E-value=2e-12  Score=94.94  Aligned_cols=85  Identities=19%  Similarity=0.234  Sum_probs=62.3

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELR   80 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~   80 (204)
                      +++|.+.....+.+.+....           ..+..++|+||||||||++|+++++..   +.+++ ++++.+.......
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a-----------~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~~~~   69 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS-----------ETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAPQLN   69 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT-----------TCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSSCHH
T ss_pred             CceeCCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcchhhh
Confidence            57788777777766665432           123459999999999999999999987   66888 9888776554455


Q ss_pred             HHHHhcCCCeEEEEecCCccc
Q 041769           81 NMLIATKNKSILVVGDIDYLT  101 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~~  101 (204)
                      ..+... .+++|+|||+|.+.
T Consensus        70 ~~~~~a-~~g~l~ldei~~l~   89 (145)
T 3n70_A           70 DFIALA-QGGTLVLSHPEHLT   89 (145)
T ss_dssp             HHHHHH-TTSCEEEECGGGSC
T ss_pred             cHHHHc-CCcEEEEcChHHCC
Confidence            555544 45799999999984

>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=99.30  E-value=1.7e-11  Score=100.08  Aligned_cols=118  Identities=18%  Similarity=0.187  Sum_probs=77.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~   75 (204)
                      +|++++|++..+..+.+.+.    .       +  ...+++|+||||+|||++++++++.+     +.+++.++.++..+
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~----~-------~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   81 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVE----R-------K--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG   81 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTT----T-------T--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTC
T ss_pred             CHHHHhCCHHHHHHHHHHHh----C-------C--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccC
Confidence            47889999877766644432    1       1  12249999999999999999999986     34577788776533


Q ss_pred             hHHHHHH---HH-hc----CCCeEEEEecCCccchh------------------------------hhhhccccceeEec
Q 041769           76 NMELRNM---LI-AT----KNKSILVVGDIDYLTLH------------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~---~~-~~----~~~~il~iDeid~~~~~------------------------------a~~r~~R~~~~i~~  117 (204)
                      ...+...   +. ..    ..+.+++|||+|.++..                              ++.  .|+. .+.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~--sr~~-~i~~  158 (319)
T 2chq_A           82 IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQ--SRCA-VFRF  158 (319)
T ss_dssp             TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHH--TTCE-EEEC
T ss_pred             hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHH--hhCe-EEEe
Confidence            2222222   21 11    35789999999988221                              222  2554 6888


Q ss_pred             CCCCHHHHHHHHHHhhC
Q 041769          118 SYCTPFRFKMLASNYFG  134 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~~~  134 (204)
                      ..|+..+...++...+.
T Consensus       159 ~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          159 KPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             CCCCHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHH
Confidence            88888887776665543

>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=99.28  E-value=7.4e-11  Score=96.61  Aligned_cols=117  Identities=15%  Similarity=0.169  Sum_probs=76.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~~~   75 (204)
                      +|++++|++..+..+...+..           +  ...+++|+||||+|||++++++++.+.     ..++.++.++...
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKT-----------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG   89 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHH-----------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHHc-----------C--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCc
Confidence            488999998877776554431           1  123599999999999999999999863     2467777665432


Q ss_pred             hHHHHHHHHh----c----CCCeEEEEecCCccchh------------------------------hhhhccccceeEec
Q 041769           76 NMELRNMLIA----T----KNKSILVVGDIDYLTLH------------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~~~~----~----~~~~il~iDeid~~~~~------------------------------a~~r~~R~~~~i~~  117 (204)
                      ...+...+..    .    ..+.+++|||+|.++..                              ++.  .|+. .+.|
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~--sr~~-~~~~  166 (327)
T 1iqp_A           90 INVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ--SRCA-IFRF  166 (327)
T ss_dssp             HHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH--HTEE-EEEC
T ss_pred             hHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHH--hhCc-EEEe
Confidence            2222222211    1    35789999999998221                              111  2554 5788


Q ss_pred             CCCCHHHHHHHHHHhh
Q 041769          118 SYCTPFRFKMLASNYF  133 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~~  133 (204)
                      +.++..+...++....
T Consensus       167 ~~l~~~~~~~~l~~~~  182 (327)
T 1iqp_A          167 RPLRDEDIAKRLRYIA  182 (327)
T ss_dssp             CCCCHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHH
Confidence            8888877766665544

>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=99.28  E-value=1.2e-11  Score=101.98  Aligned_cols=64  Identities=25%  Similarity=0.449  Sum_probs=47.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh--H-----HHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN--M-----ELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~--~-----~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +.+++||||||||||++++++++.+   +.+++.+++..+...  .     ...........+.+|+|||++.+
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l  110 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFL  110 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGG
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccc
Confidence            4569999999999999999999999   889999987654211  0     01111222235789999999987

>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=99.27  E-value=4e-11  Score=103.31  Aligned_cols=64  Identities=25%  Similarity=0.535  Sum_probs=47.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccCh-------HHHHHHHHhcC-CCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKEN-------MELRNMLIATK-NKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~~-------~~~~~~~~~~~-~~~il~iDeid~~  100 (204)
                      ..+++||||||+|||++++++++.+     +.+++.++...+...       ........... .+.+|+|||++.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l  206 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFL  206 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccc
Confidence            4569999999999999999999998     788888887654211       00112222234 6889999999987

>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=99.25  E-value=9.5e-11  Score=107.07  Aligned_cols=117  Identities=16%  Similarity=0.273  Sum_probs=81.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|++++|.+.....+.+.+.             ...+.+++|+||||||||++++++++.+          +..++.+++
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~-------------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~  250 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI  250 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC
T ss_pred             CCCCccCCHHHHHHHHHHHh-------------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcH
Confidence            47888888776666544332             1235679999999999999999999987          667777776


Q ss_pred             CCccC--------hHHHHHHHHhcC--CCeEEEEecCCcc---------chh----------------------------
Q 041769           71 TTFKE--------NMELRNMLIATK--NKSILVVGDIDYL---------TLH----------------------------  103 (204)
Q Consensus        71 ~~~~~--------~~~~~~~~~~~~--~~~il~iDeid~~---------~~~----------------------------  103 (204)
                      +.+..        ...+..++....  .+++|||||++.+         ...                            
T Consensus       251 ~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~~~~~~~  330 (758)
T 1r6b_X          251 GSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNI  330 (758)
T ss_dssp             C---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCC
T ss_pred             HHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCchHHhhh
Confidence            65432        134555665554  4799999999976         100                            


Q ss_pred             -----hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 -----ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 -----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                           ++.|  ||+ .+.++.|+..++..++..+.
T Consensus       331 ~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          331 FEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHH
T ss_pred             hhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHH
Confidence                 2333  887 59999999999877776543

>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=99.24  E-value=2.4e-11  Score=100.72  Aligned_cols=87  Identities=22%  Similarity=0.372  Sum_probs=59.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC------CceEEeecCCcc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN------FDVYDLELTTFK   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~------~~~~~~~~~~~~   74 (204)
                      +|++++|++++++.+...+.    ..         ...+++|+||||+|||++++++++.++      ..+..++.++..
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~----~~---------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~  101 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLK----SA---------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDER  101 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTT----CT---------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCC
T ss_pred             CHHHhhCCHHHHHHHHHHHh----cC---------CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccccc
Confidence            47889999887766644432    11         123499999999999999999999864      357777777654


Q ss_pred             ChHHHHHHH---Hh---------------cCCCeEEEEecCCcc
Q 041769           75 ENMELRNML---IA---------------TKNKSILVVGDIDYL  100 (204)
Q Consensus        75 ~~~~~~~~~---~~---------------~~~~~il~iDeid~~  100 (204)
                      ....+.+.+   ..               ...+.+|+|||++.+
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l  145 (353)
T 1sxj_D          102 GISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM  145 (353)
T ss_dssp             CHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGS
T ss_pred             chHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCcc
Confidence            433332222   11               124569999999998

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.24  E-value=1.1e-11  Score=93.25  Aligned_cols=87  Identities=17%  Similarity=0.351  Sum_probs=60.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|++++|.+.....+.+.+..             ..+.+++|+||||||||++++++++.+          +.+++.+++
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             ccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            477888887665555443321             225679999999999999999999997          677888776


Q ss_pred             CCcc----Ch----HHHHHHHHh---cCCCeEEEEecCCcc
Q 041769           71 TTFK----EN----MELRNMLIA---TKNKSILVVGDIDYL  100 (204)
Q Consensus        71 ~~~~----~~----~~~~~~~~~---~~~~~il~iDeid~~  100 (204)
                      ..+.    ..    ..+...+..   ...+.+|+|||++.+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l  127 (187)
T 2p65_A           87 SSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTV  127 (187)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGG
T ss_pred             HHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHh
Confidence            5542    11    123333332   245789999999987

>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=99.24  E-value=4.5e-11  Score=110.66  Aligned_cols=116  Identities=14%  Similarity=0.235  Sum_probs=77.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|+.++|.++....+.+.+.    .         ..+.+++|+||||||||++++++|+.+          +.+++.+++
T Consensus       168 ~ld~viGr~~~i~~l~~~l~----~---------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~  234 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILL----R---------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQM  234 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHH----C---------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC
T ss_pred             CCcccCCcHHHHHHHHHHHh----c---------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeeh
Confidence            47888998866666544432    1         224569999999999999999999998          788999988


Q ss_pred             CCccCh--------HHHHHHHHhc---CCCeEEEEecCCccc--------hh----------------------------
Q 041769           71 TTFKEN--------MELRNMLIAT---KNKSILVVGDIDYLT--------LH----------------------------  103 (204)
Q Consensus        71 ~~~~~~--------~~~~~~~~~~---~~~~il~iDeid~~~--------~~----------------------------  103 (204)
                      +.+...        ..+..++...   ..+.+|||||++.+.        ..                            
T Consensus       235 ~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~I~at~~~~~~~~  314 (854)
T 1qvr_A          235 GSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREI  314 (854)
T ss_dssp             -----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHHH
T ss_pred             HHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCCCeEEEEecCchHHhhh
Confidence            776421        2344555444   357899999999862        00                            


Q ss_pred             ----hhhhccccceeEecCCCCHHHHHHHHHHh
Q 041769          104 ----ILLRSSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus       104 ----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                          ++.  .||+. +.++.|+..++..++..+
T Consensus       315 ~~d~aL~--rRf~~-i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          315 EKDPALE--RRFQP-VYVDEPTVEETISILRGL  344 (854)
T ss_dssp             TTCTTTC--SCCCC-EEECCCCHHHHHHHHHHH
T ss_pred             ccCHHHH--hCCce-EEeCCCCHHHHHHHHHhh
Confidence                223  38886 999999999887777643

>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=99.23  E-value=2.2e-10  Score=95.55  Aligned_cols=118  Identities=18%  Similarity=0.356  Sum_probs=78.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++...+.+...+..           + ..+..++|+||+|+|||++++++++.++.                 
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~   81 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   81 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHH
T ss_pred             chhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHH
Confidence            478899998777776555431           1 12345899999999999999999998854                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhcC------CCeEEEEecCCccchh---------------------------
Q 041769           64 -------DVYDLELTTFKENMELRNMLIATK------NKSILVVGDIDYLTLH---------------------------  103 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~~------~~~il~iDeid~~~~~---------------------------  103 (204)
                             .++.++.........++.++....      .+.+++|||+|.++..                           
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  161 (373)
T 1jr3_A           82 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (373)
T ss_dssp             HHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGG
T ss_pred             HhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence                   234444433222334555555442      4689999999998221                           


Q ss_pred             ---hhhhccccceeEecCCCCHHHHHHHHHHhh
Q 041769          104 ---ILLRSSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 ---a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                         .+.  .|+ ..+.+..|+..+...++..++
T Consensus       162 l~~~l~--sr~-~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          162 LPVTIL--SRC-LQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             SCHHHH--TTS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             CcHHHH--hhe-eEeeCCCCCHHHHHHHHHHHH
Confidence               111  244 568888888888777666544

>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=99.23  E-value=6.2e-12  Score=95.18  Aligned_cols=94  Identities=19%  Similarity=0.240  Sum_probs=61.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCccCh
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTFKEN   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~   76 (204)
                      +|++++......+.+.+.+..+..      .+..+.+.+++|+|||||||||+++++++.+    |..++.++..++...
T Consensus         8 ~f~~~~~~~~~~~~~~~~~~~~~~------~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~   81 (180)
T 3ec2_A            8 NLDTYHPKNVSQNRALLTIRVFVH------NFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFR   81 (180)
T ss_dssp             CSSSCCCCSHHHHHHHHHHHHHHH------SCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHH
T ss_pred             ccccccCCCHHHHHHHHHHHHHHH------hccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH
Confidence            588888765444555455554433      3334446779999999999999999999987    666666665543210


Q ss_pred             -------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           77 -------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        77 -------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                             ......+.....+.+|+|||++..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~llilDE~~~~  112 (180)
T 3ec2_A           82 LKHLMDEGKDTKFLKTVLNSPVLVLDDLGSE  112 (180)
T ss_dssp             HHHHHHHTCCSHHHHHHHTCSEEEEETCSSS
T ss_pred             HHHHhcCchHHHHHHHhcCCCEEEEeCCCCC
Confidence                   000122333346789999999864

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.23  E-value=1.2e-10  Score=101.07  Aligned_cols=119  Identities=18%  Similarity=0.202  Sum_probs=78.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      +|+.++|.+.....+.+.+..             ....+++|+||||||||++++++|+.+          +.+++.+++
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~  244 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             CCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeC
Confidence            378899998777766544431             224579999999999999999999997          778888887


Q ss_pred             CCc-cC--hHHHHHHHHhc--CCCeEEEEecCCcc-------------------c---------h-hhhhhccccceeEe
Q 041769           71 TTF-KE--NMELRNMLIAT--KNKSILVVGDIDYL-------------------T---------L-HILLRSSCMDMHIH  116 (204)
Q Consensus        71 ~~~-~~--~~~~~~~~~~~--~~~~il~iDeid~~-------------------~---------~-~a~~r~~R~~~~i~  116 (204)
                      +.. .+  ...+..+|...  ..+++||||.-...                   +         + .++.|  ||.. +.
T Consensus       245 ~~~~~g~~e~~~~~~~~~~~~~~~~iLfiD~~~~a~~~L~~~L~~g~v~vI~at~~~e~~~~~~~~~al~~--Rf~~-i~  321 (468)
T 3pxg_A          245 GTKYRGEFEDRLKKVMDEIRQAGNIILFIDAAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALER--RFQP-IQ  321 (468)
T ss_dssp             --------CTTHHHHHHHHHTCCCCEEEECC--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHH--SEEE-EE
T ss_pred             CccccchHHHHHHHHHHHHHhcCCeEEEEeCchhHHHHHHHhhcCCCEEEEecCCHHHHHHHhhcCHHHHH--hCcc-ce
Confidence            621 11  12344555544  35789999921111                   0         0 14444  8985 99


Q ss_pred             cCCCCHHHHHHHHHHhhCC
Q 041769          117 MSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus       117 ~~~p~~~~~~~i~~~~~~~  135 (204)
                      ++.|+.+++..++..+...
T Consensus       322 v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          322 VDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             CCCCCHHHHHHHHHHTTTT
T ss_pred             eCCCCHHHHHHHHHHHHHH
Confidence            9999999998888876543

>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=99.23  E-value=2.6e-10  Score=93.12  Aligned_cols=117  Identities=15%  Similarity=0.149  Sum_probs=78.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~~~   75 (204)
                      +|++++|++...+.+.+.+.    .       + . ..+++|+||||+|||++++++++.+     +..++.++.++...
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~----~-------~-~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   85 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAK----D-------G-N-MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG   85 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHH----S-------C-C-CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS
T ss_pred             CHHHHHCCHHHHHHHHHHHH----c-------C-C-CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccC
Confidence            47889999877776655443    1       1 1 1239999999999999999999986     34577777766544


Q ss_pred             hHHHHHHHHhc--------C-CCeEEEEecCCccchh-----------------------------hhhhccccceeEec
Q 041769           76 NMELRNMLIAT--------K-NKSILVVGDIDYLTLH-----------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~~~~~--------~-~~~il~iDeid~~~~~-----------------------------a~~r~~R~~~~i~~  117 (204)
                      ...+++.+...        . .+.+++|||+|.++..                             .-++ .|+. .+.+
T Consensus        86 ~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~-sr~~-~i~~  163 (323)
T 1sxj_B           86 IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQ-SQCA-ILRY  163 (323)
T ss_dssp             HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHH-TTSE-EEEC
T ss_pred             hHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHH-hhce-EEee
Confidence            44454443321        2 3789999999997221                             1111 2444 6888


Q ss_pred             CCCCHHHHHHHHHHh
Q 041769          118 SYCTPFRFKMLASNY  132 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~  132 (204)
                      +.|+..+...++...
T Consensus       164 ~~~~~~~~~~~l~~~  178 (323)
T 1sxj_B          164 SKLSDEDVLKRLLQI  178 (323)
T ss_dssp             CCCCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHH
Confidence            888888776666543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.22  E-value=3e-12  Score=93.80  Aligned_cols=85  Identities=15%  Similarity=0.117  Sum_probs=60.2

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNML   83 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~   83 (204)
                      +++|.+.....+.+.+..+.           ..+.+++|+||||||||++|++++...+ +++.++++.+... .....+
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~-----------~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~-~~~~~~   71 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA-----------KRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLID-MPMELL   71 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH-----------TCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHH-CHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChH-hhhhHH
Confidence            46788777777766666442           1245699999999999999999999888 8888888765322 133444


Q ss_pred             HhcCCCeEEEEecCCccch
Q 041769           84 IATKNKSILVVGDIDYLTL  102 (204)
Q Consensus        84 ~~~~~~~il~iDeid~~~~  102 (204)
                      ... .+++|+|||++.+..
T Consensus        72 ~~a-~~~~l~lDei~~l~~   89 (143)
T 3co5_A           72 QKA-EGGVLYVGDIAQYSR   89 (143)
T ss_dssp             HHT-TTSEEEEEECTTCCH
T ss_pred             HhC-CCCeEEEeChHHCCH
Confidence            443 467999999999843

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.21  E-value=2.9e-10  Score=93.30  Aligned_cols=89  Identities=13%  Similarity=0.218  Sum_probs=60.8

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHH
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMEL   79 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~   79 (204)
                      ++++|.+.....+.+.+....           ..+.+++|+||||||||++|++++...   +.+++.++++.+....-.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a-----------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~   70 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA-----------PSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLE   70 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC-----------STTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHH
Confidence            357788877777766655432           224569999999999999999999976   568889998876432111


Q ss_pred             HHHHHh-----------------cCCCeEEEEecCCccch
Q 041769           80 RNMLIA-----------------TKNKSILVVGDIDYLTL  102 (204)
Q Consensus        80 ~~~~~~-----------------~~~~~il~iDeid~~~~  102 (204)
                      .+.|..                 ...+++|||||++.+..
T Consensus        71 ~~lfg~~~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~  110 (304)
T 1ojl_A           71 SELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISP  110 (304)
T ss_dssp             HHHTCCCSSCCC---CCCCCHHHHHTTSEEEEESCTTCCH
T ss_pred             HHhcCccccccCchhhhhcCHHHhcCCCEEEEeccccCCH
Confidence            111111                 01357999999999843

>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=99.20  E-value=8.8e-11  Score=98.42  Aligned_cols=122  Identities=20%  Similarity=0.260  Sum_probs=82.8

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc-----------CCceEEeecC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----------NFDVYDLELT   71 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----------~~~~~~~~~~   71 (204)
                      ++++|.++..+.+.+.+..+...         ..+.+++|+||||||||++++++++.+           +..++.+++.
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            67888888888887766654432         224579999999999999999999988           8888888865


Q ss_pred             Ccc-Ch-----------------------HH-HHHHHHhcC-CCeEEEEecCCccc--------hhhhhh----------
Q 041769           72 TFK-EN-----------------------ME-LRNMLIATK-NKSILVVGDIDYLT--------LHILLR----------  107 (204)
Q Consensus        72 ~~~-~~-----------------------~~-~~~~~~~~~-~~~il~iDeid~~~--------~~a~~r----------  107 (204)
                      ... ..                       .. +..++.... .+.+|+|||+|.+.        +..+.+          
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~  170 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMI  170 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEE
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEE
Confidence            433 11                       11 222222222 23399999999862        211111          


Q ss_pred             --------------ccccceeEecCCCCHHHHHHHHHHhh
Q 041769          108 --------------SSCMDMHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       108 --------------~~R~~~~i~~~~p~~~~~~~i~~~~~  133 (204)
                                    ..||...+.++.++..+...++..++
T Consensus       171 t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~  210 (384)
T 2qby_B          171 SNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYA  210 (384)
T ss_dssp             CSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHH
Confidence                          03666689999999988887777654

>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=99.17  E-value=1.2e-10  Score=107.80  Aligned_cols=89  Identities=18%  Similarity=0.353  Sum_probs=60.5

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCC---C-ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAW---K-HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE   75 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~-~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~   75 (204)
                      ++++|++..+..+...+....        .|...   + .+++|+||||||||++|++|++.+   +.+++.++++.+..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~--------~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~  629 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRAR--------AGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME  629 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHG--------GGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCS
T ss_pred             cccCCcHHHHHHHHHHHHHHh--------cccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccc
Confidence            356777666666655544321        12111   2 369999999999999999999999   78899999887643


Q ss_pred             hH-------------------HHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 NM-------------------ELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ~~-------------------~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..                   .+...+.. ..+++|||||++.+
T Consensus       630 ~~~~s~l~g~~~~~~G~~~~g~l~~~~~~-~~~~vl~lDEi~~l  672 (854)
T 1qvr_A          630 KHAVSRLIGAPPGYVGYEEGGQLTEAVRR-RPYSVILFDEIEKA  672 (854)
T ss_dssp             SGGGGGC--------------CHHHHHHH-CSSEEEEESSGGGS
T ss_pred             hhHHHHHcCCCCCCcCccccchHHHHHHh-CCCeEEEEeccccc
Confidence            21                   11222222 35789999999998

>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=99.16  E-value=1.7e-09  Score=90.57  Aligned_cols=92  Identities=17%  Similarity=0.126  Sum_probs=62.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCccChH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTFKENM   77 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~~   77 (204)
                      .++++|.+...+.+...+........       +....++|+||||+|||++++++++.+    +..++.+++.......
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~-------~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~   88 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFT   88 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCC-------CCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHH
Confidence            36788888888888777665443211       111269999999999999999999998    5678888865543211


Q ss_pred             H--------------------------HHHHHHhcCCCeEEEEecCCcc
Q 041769           78 E--------------------------LRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ~--------------------------~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .                          +...+.....+.+|+|||++.+
T Consensus        89 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A           89 AIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc
Confidence            1                          1112222245789999999997

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.16  E-value=3.8e-10  Score=103.14  Aligned_cols=119  Identities=18%  Similarity=0.209  Sum_probs=79.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeec
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLEL   70 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~   70 (204)
                      .|+.++|.++....+.+.+..             ..+.+++|+||||||||++|+++|+.+          +..++.+++
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~  244 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             CCCCccCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc
Confidence            367899998777776554331             224679999999999999999999997          778888777


Q ss_pred             CCc-cC--hHHHHHHHHhc--CCCeEEEEecCCcc-------------------c---------hh-hhhhccccceeEe
Q 041769           71 TTF-KE--NMELRNMLIAT--KNKSILVVGDIDYL-------------------T---------LH-ILLRSSCMDMHIH  116 (204)
Q Consensus        71 ~~~-~~--~~~~~~~~~~~--~~~~il~iDeid~~-------------------~---------~~-a~~r~~R~~~~i~  116 (204)
                      ..- .+  ...+..+|..+  ..+++||||.-...                   +         ++ ++.|  ||. .+.
T Consensus       245 g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD~~~~~~~~L~~~l~~~~v~~I~at~~~~~~~~~~~d~al~r--Rf~-~i~  321 (758)
T 3pxi_A          245 GTKYRGEFEDRLKKVMDEIRQAGNIILFIDAAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALER--RFQ-PIQ  321 (758)
T ss_dssp             --------CTTHHHHHHHHHTCCCCEEEECC--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHH--SEE-EEE
T ss_pred             cccccchHHHHHHHHHHHHHhcCCEEEEEcCchhHHHHHHHHHhcCCEEEEeCCChHHHHHHhhccHHHHh--hCc-EEE
Confidence            211 11  12445555544  36789999921111                   0         11 4555  995 599


Q ss_pred             cCCCCHHHHHHHHHHhhCC
Q 041769          117 MSYCTPFRFKMLASNYFGI  135 (204)
Q Consensus       117 ~~~p~~~~~~~i~~~~~~~  135 (204)
                      ++.|+.+++..|+..+...
T Consensus       322 v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          322 VDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             CCCCCHHHHHHHHHHTTTT
T ss_pred             eCCCCHHHHHHHHHHHHHH
Confidence            9999999999998866543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.12  E-value=3.7e-11  Score=92.39  Aligned_cols=94  Identities=20%  Similarity=0.282  Sum_probs=59.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCC-CCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC-
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKA-WKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE-   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~-   75 (204)
                      +|+++++.+.....+.+.+..+....      ... .+.+++|+||||||||++++++++.+   +.+++.++...+.. 
T Consensus        23 ~f~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~   96 (202)
T 2w58_A           23 SLSDVDLNDDGRIKAIRFAERFVAEY------EPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRE   96 (202)
T ss_dssp             CTTSSCCSSHHHHHHHHHHHHHHHHC------CSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHH
T ss_pred             CHhhccCCChhHHHHHHHHHHHHHHh------hhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHH
Confidence            57888887654444545554443321      111 12679999999999999999999988   56777777654311 


Q ss_pred             ------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 ------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                            ...+...+.......+|+|||++..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~lilDei~~~  127 (202)
T 2w58_A           97 LKHSLQDQTMNEKLDYIKKVPVLMLDDLGAE  127 (202)
T ss_dssp             HHHC---CCCHHHHHHHHHSSEEEEEEECCC
T ss_pred             HHHHhccchHHHHHHHhcCCCEEEEcCCCCC
Confidence                  0011222233334569999999775

>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=99.11  E-value=1.1e-09  Score=90.88  Aligned_cols=88  Identities=24%  Similarity=0.366  Sum_probs=58.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----ceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----DVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----~~~~~~~~~~~~   75 (204)
                      +|++++|++.+...+...+    ..       | ..+ +++|+||||||||++++++++.+..     .+..++.++..+
T Consensus        23 ~~~~~~g~~~~~~~L~~~i----~~-------g-~~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~   89 (340)
T 1sxj_C           23 TLDEVYGQNEVITTVRKFV----DE-------G-KLP-HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRG   89 (340)
T ss_dssp             SGGGCCSCHHHHHHHHHHH----HT-------T-CCC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCS
T ss_pred             cHHHhcCcHHHHHHHHHHH----hc-------C-CCc-eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCccccc
Confidence            4788888876655543332    22       1 112 3999999999999999999998732     366677665444


Q ss_pred             hHHHHHHHHhc--------CCCeEEEEecCCccc
Q 041769           76 NMELRNMLIAT--------KNKSILVVGDIDYLT  101 (204)
Q Consensus        76 ~~~~~~~~~~~--------~~~~il~iDeid~~~  101 (204)
                      ...+++.+...        ....+++|||+|.++
T Consensus        90 ~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~  123 (340)
T 1sxj_C           90 IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMT  123 (340)
T ss_dssp             HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSC
T ss_pred             HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCC
Confidence            44444333211        246899999999874

>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=99.08  E-value=1.9e-10  Score=95.32  Aligned_cols=50  Identities=24%  Similarity=0.355  Sum_probs=35.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +|++++|++..+..+...   .. .         +...+++|+||||||||++|+++++.++.
T Consensus        22 ~f~~i~G~~~~~~~l~~~---~~-~---------~~~~~vLl~G~~GtGKT~la~~la~~~~~   71 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLT---AV-D---------PGIGGVLVFGDRGTGKSTAVRALAALLPE   71 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHH---HH-C---------GGGCCEEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             CchhccChHHHHHHHHHH---hh-C---------CCCceEEEECCCCccHHHHHHHHHHhCcc
Confidence            588999997655432111   11 1         11345999999999999999999999863

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.06  E-value=1.5e-10  Score=96.70  Aligned_cols=89  Identities=19%  Similarity=0.259  Sum_probs=59.9

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---------CCceEEeecCCc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---------NFDVYDLELTTF   73 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---------~~~~~~~~~~~~   73 (204)
                      ++++|.+.....+...+.....         ...+.+++|+||||||||++++++++.+         +..++.+++...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   89 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR   89 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC
Confidence            5677777766666554432211         1234569999999999999999999998         778888887654


Q ss_pred             cCh----------------------HH-HHHHHHh---cCCCeEEEEecCCcc
Q 041769           74 KEN----------------------ME-LRNMLIA---TKNKSILVVGDIDYL  100 (204)
Q Consensus        74 ~~~----------------------~~-~~~~~~~---~~~~~il~iDeid~~  100 (204)
                      ...                      .. +..++..   ...+.+|+|||+|.+
T Consensus        90 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l  142 (387)
T 2v1u_A           90 ETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFL  142 (387)
T ss_dssp             CSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHH
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhh
Confidence            321                      11 1222222   234679999999987

>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=99.06  E-value=9.5e-10  Score=91.34  Aligned_cols=49  Identities=22%  Similarity=0.480  Sum_probs=34.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +|++++|++.+...+.+.+.   ..       + ..+. ++|+||||+||||+++++++.+
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~---~~-------~-~~~~-~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSD---QP-------R-DLPH-LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTT---CT-------T-CCCC-EEEECSTTSSHHHHHHTHHHHH
T ss_pred             CHHHhcCCHHHHHHHHHHHh---hC-------C-CCCe-EEEECCCCCCHHHHHHHHHHHH
Confidence            47889998766655533330   11       1 1123 9999999999999999999964

>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=99.03  E-value=4.3e-10  Score=93.76  Aligned_cols=121  Identities=17%  Similarity=0.228  Sum_probs=77.5

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc------CCceEEeecCCccC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL------NFDVYDLELTTFKE   75 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~------~~~~~~~~~~~~~~   75 (204)
                      +++++|.+...+.+.+.+......         ..+..++|+||||+|||++++.+++.+      +..++.+++.....
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~---------~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~   89 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYRE---------EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDT   89 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGT---------CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCC
Confidence            356778877766665544322211         224569999999999999999999988      78888888543211


Q ss_pred             ----------------------hHH-HH---HHHHhcCCCeEEEEecCCccc----hh----------------------
Q 041769           76 ----------------------NME-LR---NMLIATKNKSILVVGDIDYLT----LH----------------------  103 (204)
Q Consensus        76 ----------------------~~~-~~---~~~~~~~~~~il~iDeid~~~----~~----------------------  103 (204)
                                            ... +.   ..+.....+.+|+|||++.+.    ..                      
T Consensus        90 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~  169 (386)
T 2qby_A           90 PYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGI  169 (386)
T ss_dssp             HHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEE
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEE
Confidence                                  112 11   222222347899999998861    00                      


Q ss_pred             ------------hhhhccccc-eeEecCCCCHHHHHHHHHHhh
Q 041769          104 ------------ILLRSSCMD-MHIHMSYCTPFRFKMLASNYF  133 (204)
Q Consensus       104 ------------a~~r~~R~~-~~i~~~~p~~~~~~~i~~~~~  133 (204)
                                  .+.  .|+. ..+.++.++..+...++...+
T Consensus       170 ~~~~~~~~~~~~~~~--~r~~~~~i~l~~l~~~~~~~il~~~~  210 (386)
T 2qby_A          170 TNDVKFVDLLDPRVK--SSLSEEEIIFPPYNAEELEDILTKRA  210 (386)
T ss_dssp             ESCGGGGGGCTTHHH--HTTTTEEEEECCCCHHHHHHHHHHHH
T ss_pred             ECCCChHhhhCHHHh--ccCCCeeEEeCCCCHHHHHHHHHHHH
Confidence                        111  2443 478888888888777766543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=99.00  E-value=4.2e-10  Score=92.59  Aligned_cols=94  Identities=26%  Similarity=0.385  Sum_probs=56.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC----CceEEeecCCccC-
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN----FDVYDLELTTFKE-   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~----~~~~~~~~~~~~~-   75 (204)
                      +|+++.+.......+.+.+..++.      ..+-..+.+++||||||||||+++.+++..+.    .++..++.+.+.. 
T Consensus       122 tfd~f~~~~~~~~~~~~~~~~~i~------~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~  195 (308)
T 2qgz_A          122 HLSDIDVNNASRMEAFSAILDFVE------QYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAID  195 (308)
T ss_dssp             CGGGSCCCSHHHHHHHHHHHHHHH------HCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHH
T ss_pred             CHhhCcCCChHHHHHHHHHHHHHH------hccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHH
Confidence            578887765433444444444433      21111246799999999999999999998664    6777776653210 


Q ss_pred             ------hHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           76 ------NMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        76 ------~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                            ...+...+.......+|+|||++..
T Consensus       196 l~~~~~~~~~~~~~~~~~~~~lLiiDdig~~  226 (308)
T 2qgz_A          196 VKNAISNGSVKEEIDAVKNVPVLILDDIGAE  226 (308)
T ss_dssp             HHCCCC----CCTTHHHHTSSEEEEETCCC-
T ss_pred             HHHHhccchHHHHHHHhcCCCEEEEcCCCCC
Confidence                  1111111222234579999999765

>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=98.97  E-value=1.8e-08  Score=83.54  Aligned_cols=95  Identities=22%  Similarity=0.200  Sum_probs=64.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC------------------------ceEEeecC---CccChHHHHHHHHhcC--
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF------------------------DVYDLELT---TFKENMELRNMLIATK--   87 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~------------------------~~~~~~~~---~~~~~~~~~~~~~~~~--   87 (204)
                      +.+++|+||||+|||++|+++|+.+..                        ++..++..   .-.+...+++++....  
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~  103 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhc
Confidence            456999999999999999999998742                        35555553   2233455666665542  


Q ss_pred             ----CCeEEEEecCCccchh---hhhh-------------------------ccccceeEecCCCCHHHHHHHHHHh
Q 041769           88 ----NKSILVVGDIDYLTLH---ILLR-------------------------SSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus        88 ----~~~il~iDeid~~~~~---a~~r-------------------------~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                          ...|++|||+|.++..   ++++                         .+|. ..+.|+.|+..+...++...
T Consensus       104 ~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc-~~~~~~~~~~~~~~~~L~~~  179 (334)
T 1a5t_A          104 ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRC-RLHYLAPPPEQYAVTWLSRE  179 (334)
T ss_dssp             CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHH
T ss_pred             cccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcc-eeeeCCCCCHHHHHHHHHHh
Confidence                4689999999998322   1111                         0254 35888888888776655544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.93  E-value=5e-09  Score=91.48  Aligned_cols=94  Identities=17%  Similarity=0.167  Sum_probs=59.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC--ceEEeecCCccChHHH-----------HHHHHhcC-----CCeEEEEecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF--DVYDLELTTFKENMEL-----------RNMLIATK-----NKSILVVGDID   98 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~--~~~~~~~~~~~~~~~~-----------~~~~~~~~-----~~~il~iDeid   98 (204)
                      +.+++|+||||||||++|+++++.++.  ++..+.... .+..++           ...+....     .++++||||++
T Consensus        41 ~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~-~t~~dL~G~~~~~~~~~~g~~~~~~~g~l~~~~IL~IDEI~  119 (500)
T 3nbx_X           41 GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRF-STPEEVFGPLSIQALKDEGRYERLTSGYLPEAEIVFLDEIW  119 (500)
T ss_dssp             TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTT-CCHHHHHCCBC----------CBCCTTSGGGCSEEEEESGG
T ss_pred             CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhc-CCHHHhcCcccHHHHhhchhHHhhhccCCCcceeeeHHhHh
Confidence            356999999999999999999998854  333333321 111111           11222121     34689999999


Q ss_pred             ccchh-------------------------------------------hhhhccccceeEecCCCCH-HHHHHHHHHhh
Q 041769           99 YLTLH-------------------------------------------ILLRSSCMDMHIHMSYCTP-FRFKMLASNYF  133 (204)
Q Consensus        99 ~~~~~-------------------------------------------a~~r~~R~~~~i~~~~p~~-~~~~~i~~~~~  133 (204)
                      .++..                                           +++  +||...+.+++|+. +++..|+..+.
T Consensus       120 r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLl--dRF~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          120 KAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALY--DRMLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             GCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHH--TTCCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             hhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHH--HHHHHHHHHHHhhhhhhHHHHHhccc
Confidence            88111                                           222  38989999999997 56667766543

>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=98.88  E-value=8.4e-09  Score=84.67  Aligned_cols=65  Identities=14%  Similarity=0.173  Sum_probs=50.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc------CCceEEeecCC-ccChHHHHHHHHhcC------CCeEEEEecCCccc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL------NFDVYDLELTT-FKENMELRNMLIATK------NKSILVVGDIDYLT  101 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~------~~~~~~~~~~~-~~~~~~~~~~~~~~~------~~~il~iDeid~~~  101 (204)
                      ...++||||||+|||++++++++.+      ..++..+++++ -.+...+++++..+.      ...|++|||+|.++
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvviIdead~lt   95 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMT   95 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEEeccHHHhC
Confidence            3469999999999999999999864      46788888764 344456666666542      35799999999993

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.86  E-value=3.5e-09  Score=78.04  Aligned_cols=57  Identities=19%  Similarity=0.286  Sum_probs=45.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +..++|+||+|+|||++++++++.+   |.++++++...+...       .....+.+|+|||++.+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-------~~~~~~~lLilDE~~~~   95 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-------DAAFEAEYLAVDQVEKL   95 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-------GGGGGCSEEEEESTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-------HHHhCCCEEEEeCcccc
Confidence            5569999999999999999999988   677888887766543       11235789999999976

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.80  E-value=7.5e-09  Score=80.02  Aligned_cols=62  Identities=19%  Similarity=0.300  Sum_probs=41.9

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ++|..++++||||||||||+++.++|+.+...+....-+.  ...    .+.......++++||+|..
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~fans~--s~f----~l~~l~~~kIiiLDEad~~  115 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNST--SHF----WLEPLTDTKVAMLDDATTT  115 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSS--SCG----GGGGGTTCSSEEEEEECHH
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEecc--chh----hhcccCCCCEEEEECCCch
Confidence            4666678999999999999999999999865543321111  000    0122234569999999864

>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=98.78  E-value=6.6e-08  Score=97.73  Aligned_cols=64  Identities=23%  Similarity=0.426  Sum_probs=49.4

Q ss_pred             CceeEEECCCCCcHHHHH-HHHHHhcCCceEEeecCCccChHHHHHHHHhc-----------------CCCeEEEEecCC
Q 041769           37 KHSYFLYGPPGTGKSSLI-AAMTNYLNFDVYDLELTTFKENMELRNMLIAT-----------------KNKSILVVGDID   98 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la-~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~il~iDeid   98 (204)
                      ++++||+||||||||++| ++++...+..+..++++...+...+.+.+...                 ....|+||||++
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEin 1346 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEIN 1346 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccc
Confidence            567999999999999999 55666557788889998887776666665542                 124699999977


Q ss_pred             cc
Q 041769           99 YL  100 (204)
Q Consensus        99 ~~  100 (204)
                      ..
T Consensus      1347 mp 1348 (2695)
T 4akg_A         1347 LP 1348 (2695)
T ss_dssp             CS
T ss_pred             cc
Confidence            65

>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=98.62  E-value=1.5e-06  Score=73.08  Aligned_cols=65  Identities=15%  Similarity=0.289  Sum_probs=48.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc--eEEeecCCccChHHHHHHHHh-----------------cCCCeEEEEecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD--VYDLELTTFKENMELRNMLIA-----------------TKNKSILVVGDID   98 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~--~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~il~iDeid   98 (204)
                      ..++++|++||||+.+++++....+..  ++.++++.+.......+.|..                 ...++.||+||++
T Consensus       153 ~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~  232 (368)
T 3dzd_A          153 APVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRKKGKLELADQGTLFLDEVG  232 (368)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCCEECHHHHTTTSEEEEETGG
T ss_pred             hhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccccCChHhhcCCCeEEecChh
Confidence            449999999999999999999887544  899999887544322333321                 1356789999999


Q ss_pred             ccch
Q 041769           99 YLTL  102 (204)
Q Consensus        99 ~~~~  102 (204)
                      .++.
T Consensus       233 ~l~~  236 (368)
T 3dzd_A          233 ELDQ  236 (368)
T ss_dssp             GSCH
T ss_pred             hCCH
Confidence            9944

>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=98.61  E-value=1.2e-06  Score=74.01  Aligned_cols=65  Identities=14%  Similarity=0.228  Sum_probs=48.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCccChHHHHHHHHh-----------------cCCCeEEEEecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTFKENMELRNMLIA-----------------TKNKSILVVGDI   97 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~il~iDei   97 (204)
                      ..++++|++|||||++|+++....+   .+++.++++.+....--.+.|..                 ...++.||+||+
T Consensus       161 ~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~~~g~~~~a~~gtlfldei  240 (387)
T 1ny5_A          161 CPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEI  240 (387)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESG
T ss_pred             CCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccccCCceeeCCCcEEEEcCh
Confidence            4489999999999999999998774   68999999876433222233321                 124689999999


Q ss_pred             Cccch
Q 041769           98 DYLTL  102 (204)
Q Consensus        98 d~~~~  102 (204)
                      +.++.
T Consensus       241 ~~l~~  245 (387)
T 1ny5_A          241 GELSL  245 (387)
T ss_dssp             GGCCH
T ss_pred             hhCCH
Confidence            99943

>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=98.59  E-value=8.3e-08  Score=80.85  Aligned_cols=90  Identities=11%  Similarity=0.179  Sum_probs=57.2

Q ss_pred             ccccCChhHHHHHHHHH-HHHHHhHHHHHHhCC-CCCceeEE--ECCCCCcHHHHHHHHHHhc---------CCceEEee
Q 041769            3 DTLAMDSNMKQMIMDDL-ERFVKRKEFYRNVGK-AWKHSYFL--YGPPGTGKSSLIAAMTNYL---------NFDVYDLE   69 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~-~~~~g~ll--~Gp~GtGKT~la~~la~~~---------~~~~~~~~   69 (204)
                      ++++|.+...+.+.+.+ .....        +. ..+..+++  +||||+|||++++.+++.+         +..++.++
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~--------~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~   93 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLS--------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN   93 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHT--------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE
T ss_pred             CCCCChHHHHHHHHHHHhHHHhc--------CCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE
Confidence            46777877777776665 43322        10 12446888  9999999999999999887         44567777


Q ss_pred             cCCccCh----------------------HH----HHHHHHhcCCCeEEEEecCCcc
Q 041769           70 LTTFKEN----------------------ME----LRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        70 ~~~~~~~----------------------~~----~~~~~~~~~~~~il~iDeid~~  100 (204)
                      +......                      ..    +...+.....+.+|+|||++.+
T Consensus        94 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l  150 (412)
T 1w5s_A           94 AFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSM  150 (412)
T ss_dssp             GGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHH
Confidence            5322111                      11    1122222245789999999986

>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=98.50  E-value=3.4e-07  Score=92.66  Aligned_cols=64  Identities=20%  Similarity=0.247  Sum_probs=57.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcC-CCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATK-NKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~il~iDeid~~  100 (204)
                      ..|.++.||+|||||++++++|+.+|.+++.++++.......+.++|..+. .++++++||++.+
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~  709 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRL  709 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSS
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhc
Confidence            467899999999999999999999999999999998888888888876664 5789999999998

>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=98.48  E-value=1.9e-07  Score=91.14  Aligned_cols=100  Identities=14%  Similarity=0.121  Sum_probs=62.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHh----------HHHHHH---------------hC---CCCCceeEEECCCCCcHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKR----------KEFYRN---------------VG---KAWKHSYFLYGPPGTGKSS   52 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~----------~~~~~~---------------~~---~~~~~g~ll~Gp~GtGKT~   52 (204)
                      +|+++.+.++.|..+++.+...+..          ++.+..               +|   .|.++.+++|||||||||+
T Consensus      1018 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~GKT~ 1097 (1706)
T 3cmw_A         1018 STGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTT 1097 (1706)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHH
T ss_pred             eeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCChHH
Confidence            5899999999999988887776633          122222               21   4444559999999999999


Q ss_pred             HHHHHHHhc---CCceEEeecCCcc----------------------ChHHHHHHHHh--cCCCeEEEEecCCcc
Q 041769           53 LIAAMTNYL---NFDVYDLELTTFK----------------------ENMELRNMLIA--TKNKSILVVGDIDYL  100 (204)
Q Consensus        53 la~~la~~~---~~~~~~~~~~~~~----------------------~~~~~~~~~~~--~~~~~il~iDeid~~  100 (204)
                      ||++++.+.   |-+..+++.....                      +...++.++..  ...++++++|+++.+
T Consensus      1098 la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al 1172 (1706)
T 3cmw_A         1098 LTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAAL 1172 (1706)
T ss_dssp             HHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGC
T ss_pred             HHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhc
Confidence            999999866   4455555554421                      12334333332  246899999998865

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.47  E-value=2.2e-08  Score=89.21  Aligned_cols=61  Identities=21%  Similarity=0.354  Sum_probs=40.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee----cCCccCh---HHHH-------HHHHhcCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE----LTTFKEN---MELR-------NMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~----~~~~~~~---~~~~-------~~~~~~~~~~il~iDeid~~  100 (204)
                      ++||+||||||||++|+++++.++...+...    ..++...   ....       ..+. .+.+++++|||+|.+
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~-~A~~gil~IDEid~l  403 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALV-LADGGIAVIDEIDKM  403 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHH-HHSSSEECCTTTTCC
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeE-ecCCCcEEeehhhhC
Confidence            6999999999999999999999987665432    1222110   0000       0001 124689999999998

>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=98.42  E-value=1.1e-07  Score=78.41  Aligned_cols=68  Identities=12%  Similarity=0.151  Sum_probs=42.6

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeec--CC----cc-ChH-HHHHHHHhcCCCeEEEEecCCcc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL--TT----FK-ENM-ELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~--~~----~~-~~~-~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      |++.+..++|+||||+|||+|+..++...|.++.+++.  .+    .. ... .+..+........+|+||+++.+
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~LLVIDsI~aL  194 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNV  194 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCTTT
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCCEEEEeccccc
Confidence            44555558999999999999999999876555444444  11    11 111 12222222221129999999987

>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=98.35  E-value=1.3e-06  Score=71.81  Aligned_cols=34  Identities=35%  Similarity=0.363  Sum_probs=29.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      .++++||+|+|||++++.+++..+..++.+++..
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~   65 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   65 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             cEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchh
Confidence            5999999999999999999999877777777653

>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=98.31  E-value=1e-06  Score=70.70  Aligned_cols=29  Identities=28%  Similarity=0.658  Sum_probs=25.3

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +...+++||||||||||+++.+||+.++.
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            44568999999999999999999997654

>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=98.30  E-value=1.1e-06  Score=74.12  Aligned_cols=65  Identities=20%  Similarity=0.239  Sum_probs=46.1

Q ss_pred             hCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           32 VGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        32 ~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ++++.+..++++||||+||||+++++++.++..++.+....    ....-.+....+..++++||++..
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~----~~~~~~lg~~~q~~~~l~dd~~~~  228 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL----DRLNFELGVAIDQFLVVFEDVKGT  228 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCT----TTHHHHHGGGTTCSCEEETTCCCS
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccc----hhHHHHHHHhcchhHHHHHHHHHH
Confidence            36677778999999999999999999999877665543322    111112344455667789998865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=98.19  E-value=9.8e-07  Score=67.46  Aligned_cols=33  Identities=36%  Similarity=0.463  Sum_probs=28.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +..++|.||||+||||+++.|++.++..++..+
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            345899999999999999999999998887654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.19  E-value=5.1e-06  Score=68.02  Aligned_cols=51  Identities=22%  Similarity=0.192  Sum_probs=35.8

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      +.++|.+.....+.+.+..               +..++++||+|+|||++++.+++..+  ++.+++
T Consensus        12 ~~~~gR~~el~~L~~~l~~---------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~   62 (350)
T 2qen_A           12 EDIFDREEESRKLEESLEN---------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDC   62 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHH---------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEH
T ss_pred             HhcCChHHHHHHHHHHHhc---------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEe
Confidence            3566666555555443321               14599999999999999999999876  555554

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=98.18  E-value=1.7e-06  Score=64.45  Aligned_cols=33  Identities=18%  Similarity=0.283  Sum_probs=28.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .-++|.|+||+||||+++.|+..++.+++.++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~   36 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEecc
Confidence            448899999999999999999999988776543

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.18  E-value=2.6e-06  Score=64.36  Aligned_cols=25  Identities=28%  Similarity=0.574  Sum_probs=22.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +.|.||||+|||||++.|++.++..
T Consensus         3 i~l~G~nGsGKTTLl~~l~g~l~i~   27 (178)
T 1ye8_A            3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCc
Confidence            7899999999999999999988643

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=98.16  E-value=2.2e-06  Score=63.30  Aligned_cols=30  Identities=23%  Similarity=0.308  Sum_probs=26.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|.|+||+||||+++.|++.++..++..+
T Consensus         4 i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            4 IILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            789999999999999999999998876654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=98.15  E-value=1.3e-06  Score=65.62  Aligned_cols=33  Identities=24%  Similarity=0.391  Sum_probs=29.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +..++|+||||+||||+++.|++.+|.+++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            345899999999999999999999999887754

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=98.13  E-value=1.5e-06  Score=65.49  Aligned_cols=34  Identities=24%  Similarity=0.344  Sum_probs=28.9

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .+.-++|.|+||+||||+++.|+..++..++..+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~D   37 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGLRLPLLSKD   37 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCeEecHH
Confidence            3455889999999999999999999998776643

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.10  E-value=6.7e-06  Score=84.25  Aligned_cols=64  Identities=16%  Similarity=0.155  Sum_probs=55.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcC-CCeEEEEecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATK-NKSILVVGDIDYL  100 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~il~iDeid~~  100 (204)
                      ..|..+.||+|||||.+++.+|+.+|..++.++++.-.....+.++|..+. .++..+|||++.+
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl  668 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRL  668 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSS
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcC
Confidence            456779999999999999999999999999999998777777777776664 6788999999998

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.06  E-value=5.9e-06  Score=81.76  Aligned_cols=67  Identities=15%  Similarity=0.147  Sum_probs=48.2

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc---------------------ChHHHHHHHHhc---
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK---------------------ENMELRNMLIAT---   86 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~---------------------~~~~~~~~~~~~---   86 (204)
                      ++.+.+++|+||||||||+||.+++.+.   |..+.++++.+..                     ......+.+...   
T Consensus      1424 i~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~ 1503 (2050)
T 3cmu_A         1424 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS 1503 (2050)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhc
Confidence            7778889999999999999999998775   6677777766431                     111222333333   


Q ss_pred             CCCeEEEEecCCcc
Q 041769           87 KNKSILVVGDIDYL  100 (204)
Q Consensus        87 ~~~~il~iDeid~~  100 (204)
                      ..+.+|+||+++.+
T Consensus      1504 ~~~~lVVIDsi~al 1517 (2050)
T 3cmu_A         1504 GAVDVIVVDSVAAL 1517 (2050)
T ss_dssp             TCCSEEEESCGGGC
T ss_pred             CCCCEEEEcChhHh
Confidence            57899999999744

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=98.05  E-value=2.5e-06  Score=64.29  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=28.9

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      +..+.-+.|.||||+||||+++.|++.++...+.++.
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~   42 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHS   42 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcc
Confidence            3444558899999999999999999987666555543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=98.05  E-value=2.3e-06  Score=63.45  Aligned_cols=30  Identities=40%  Similarity=0.753  Sum_probs=26.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ..+.|.||||+||||+++.|++.++..++.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            348899999999999999999999876654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.05  E-value=2e-05  Score=80.79  Aligned_cols=64  Identities=19%  Similarity=0.375  Sum_probs=47.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH-hcCCceEEeecCCccChHHHHHHHHhc------------------CCCeEEEEecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN-YLNFDVYDLELTTFKENMELRNMLIAT------------------KNKSILVVGDI   97 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~-~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~il~iDei   97 (204)
                      +.++||+||||||||.++..... ..+..++.++++...+...+...+...                  ....|+||||+
T Consensus      1304 ~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDDi 1383 (3245)
T 3vkg_A         1304 HRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDEI 1383 (3245)
T ss_dssp             TCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEEEEETTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCCcCCceEEEEeccc
Confidence            45699999999999987755444 446678889998887777776666521                  12358999999


Q ss_pred             Ccc
Q 041769           98 DYL  100 (204)
Q Consensus        98 d~~  100 (204)
                      +..
T Consensus      1384 Nmp 1386 (3245)
T 3vkg_A         1384 NLP 1386 (3245)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=98.04  E-value=2.5e-06  Score=63.66  Aligned_cols=31  Identities=29%  Similarity=0.439  Sum_probs=27.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .++|.|+||+||||+++.||+.++.+++..+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~d   36 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   36 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEccc
Confidence            3889999999999999999999998876643

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.02  E-value=4e-06  Score=64.52  Aligned_cols=63  Identities=16%  Similarity=0.229  Sum_probs=40.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh--------cC-CceEEeecCCccC---------------------hHHHHHHHH-hc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY--------LN-FDVYDLELTTFKE---------------------NMELRNMLI-AT   86 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~--------~~-~~~~~~~~~~~~~---------------------~~~~~~~~~-~~   86 (204)
                      ..++++|+||||||+++..++..        .| .+++..++.++..                     ...+...+. ..
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~   85 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKPE   85 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSGG
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhccc
Confidence            34789999999999998886433        24 6666666554321                     012222110 12


Q ss_pred             CCCeEEEEecCCcc
Q 041769           87 KNKSILVVGDIDYL  100 (204)
Q Consensus        87 ~~~~il~iDeid~~  100 (204)
                      ..+++|+|||++.+
T Consensus        86 ~~~~vliIDEAq~l   99 (199)
T 2r2a_A           86 NIGSIVIVDEAQDV   99 (199)
T ss_dssp             GTTCEEEETTGGGT
T ss_pred             cCceEEEEEChhhh
Confidence            34889999999986

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=98.02  E-value=3.5e-06  Score=63.06  Aligned_cols=32  Identities=22%  Similarity=0.422  Sum_probs=28.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..++|+|+||+||||+++.|+..++..++..+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d   43 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKSGLKYINVG   43 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHH
Confidence            45899999999999999999999998777653

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=98.01  E-value=3e-06  Score=63.59  Aligned_cols=30  Identities=30%  Similarity=0.511  Sum_probs=27.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|.|+||+||||+++.|++.+|.+++..+
T Consensus         5 I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            5 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            889999999999999999999998887654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=98.01  E-value=3.7e-06  Score=63.43  Aligned_cols=33  Identities=24%  Similarity=0.446  Sum_probs=28.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHh-cCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNY-LNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~-~~~~~~~~~   69 (204)
                      +..++|+|+|||||||+++.|+.. +|.+++.++
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~d   43 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEVG   43 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeHH
Confidence            345999999999999999999999 687776644

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=98.00  E-value=4e-06  Score=66.71  Aligned_cols=31  Identities=23%  Similarity=0.502  Sum_probs=27.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      +++.|||||||||+++.||+.++..++..|.
T Consensus         4 i~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            7899999999999999999999988876643

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=98.00  E-value=1.1e-05  Score=65.39  Aligned_cols=35  Identities=29%  Similarity=0.431  Sum_probs=28.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~   71 (204)
                      +.-++|.||||+||||+++.|+..++..++.++..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D   67 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDND   67 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEech
Confidence            34588999999999999999999885555666543

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.97  E-value=4e-06  Score=61.76  Aligned_cols=28  Identities=25%  Similarity=0.403  Sum_probs=25.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.||||+||||+++.| ..+|.+++.+
T Consensus         4 I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            4 ILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            789999999999999999 8889887664

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.97  E-value=4.3e-06  Score=61.90  Aligned_cols=31  Identities=35%  Similarity=0.478  Sum_probs=28.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .++|.|+|||||||+++.|+..+|.+++..+
T Consensus         9 ~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            4899999999999999999999999887754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.95  E-value=5.2e-06  Score=63.36  Aligned_cols=32  Identities=25%  Similarity=0.361  Sum_probs=27.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .-++|.|+||+||||+++.|++.+|..++..+
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~d   50 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEACGYPFIEGD   50 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHHTCCEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCEEEeCC
Confidence            34899999999999999999999987766543

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.94  E-value=4.7e-06  Score=61.71  Aligned_cols=31  Identities=19%  Similarity=0.476  Sum_probs=27.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -++|.|+||+||||+++.|+..+|.+++..+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~d   34 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEccc
Confidence            3889999999999999999999998876643

>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=97.93  E-value=6.6e-06  Score=62.70  Aligned_cols=30  Identities=27%  Similarity=0.519  Sum_probs=27.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -++|.|+||+||||+++.|+..++.+++..
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            488999999999999999999999887665

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.92  E-value=7.6e-06  Score=60.86  Aligned_cols=31  Identities=32%  Similarity=0.529  Sum_probs=26.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.||||+||||+++.|++.+|..++..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~~   39 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   39 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhhCcEEEeC
Confidence            3488999999999999999999988766553

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.91  E-value=1.4e-05  Score=59.14  Aligned_cols=34  Identities=21%  Similarity=0.201  Sum_probs=26.2

Q ss_pred             HHHHhCCCCCc--eeEEECCCCCcHHHHHHHHHHhc
Q 041769           28 FYRNVGKAWKH--SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        28 ~~~~~~~~~~~--g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ....+.+..+.  -+.|.||+|+|||||+++|++.+
T Consensus        22 ~l~~vsl~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           22 AEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhccccccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34444444344  48899999999999999999987

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.91  E-value=6.3e-06  Score=63.48  Aligned_cols=29  Identities=21%  Similarity=0.306  Sum_probs=26.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.||||+||||+++.|++.+|..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            78999999999999999999998877765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.90  E-value=6.6e-06  Score=61.89  Aligned_cols=31  Identities=23%  Similarity=0.426  Sum_probs=27.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.|+|||||||+++.|+..++.+++..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            3488999999999999999999999876653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.90  E-value=5.1e-06  Score=62.31  Aligned_cols=30  Identities=27%  Similarity=0.585  Sum_probs=26.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -++|.|+||+||||+++.|++.+|..++..
T Consensus         6 ~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            488999999999999999999998776554

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.89  E-value=7.1e-06  Score=60.50  Aligned_cols=30  Identities=30%  Similarity=0.514  Sum_probs=26.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|.|+||+||||+++.|+..++.+++..+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d   32 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLNIPFYDVD   32 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            789999999999999999999998877643

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.89  E-value=7.7e-06  Score=61.72  Aligned_cols=32  Identities=19%  Similarity=0.414  Sum_probs=27.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-++|.|+||+||||+++.|++.++.+++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            34589999999999999999999999877654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=97.89  E-value=1.2e-05  Score=71.74  Aligned_cols=27  Identities=44%  Similarity=0.607  Sum_probs=24.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ..++|+||||||||+++++|++.++..
T Consensus        61 ~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           61 RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            469999999999999999999998543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.89  E-value=6.9e-06  Score=63.21  Aligned_cols=29  Identities=21%  Similarity=0.344  Sum_probs=26.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.||||+||||+++.|++.+|..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            78999999999999999999999877765

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.88  E-value=1.1e-05  Score=61.51  Aligned_cols=31  Identities=13%  Similarity=0.378  Sum_probs=26.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.-+.|.||||+||||+++.|++.+|..++.
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            3448899999999999999999999765554

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.87  E-value=8.8e-05  Score=58.01  Aligned_cols=124  Identities=15%  Similarity=0.156  Sum_probs=79.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh--------------------------HHHHHHHHhcCCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN--------------------------MELRNMLIATKNK   89 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~   89 (204)
                      .+++.|+||+||||++-.+|..+   |..++.++.......                          ..+..++.  ..+
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~--~~p   85 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLK--AAP   85 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHH--HCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHHh--cCC
Confidence            48999999999999988888876   777776665431110                          12333332  257


Q ss_pred             eEEEEecCCccchh-----------hhhhccccceeEecCCCCHHHHHHHHHHhhCCC-CCCcHHHHHHHhh---hCCCC
Q 041769           90 SILVVGDIDYLTLH-----------ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGIT-EHPLLTEIDELIE---KANVT  154 (204)
Q Consensus        90 ~il~iDeid~~~~~-----------a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~-~~~~~~~~~~~~~---~~~l~  154 (204)
                      .++++||+-.....           ....+..+|..........+....+..+..+.. .+.+.+.+-+.++   ...++
T Consensus        86 dlvIVDElG~~~~~~~r~~~~~qDV~~~l~sgidVitT~Nlqh~esl~d~v~~itg~~v~e~vpd~~~~~a~~v~lvD~~  165 (228)
T 2r8r_A           86 SLVLVDELAHTNAPGSRHTKRWQDIQELLAAGIDVYTTVNVQHLESLNDQVRGITGVQVRETLPDWVLQEAFDLVLIDLP  165 (228)
T ss_dssp             SEEEESCTTCBCCTTCSSSBHHHHHHHHHHTTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCBCHHHHHTCSEEEEBCCC
T ss_pred             CEEEEeCCCCCCcccchhHHHHHHHHHHHcCCCCEEEEccccccccHHHHHHHHcCCCcCCcCccHHHhhCCeEEEecCC
Confidence            89999998865211           112233567777776666666666666666655 3444556655554   35678


Q ss_pred             HHHHHHHHhc
Q 041769          155 LADVVEQLMR  164 (204)
Q Consensus       155 ~~~i~~~~~~  164 (204)
                      |.++.+.+..
T Consensus       166 p~~l~~rl~~  175 (228)
T 2r8r_A          166 PRELLERLRD  175 (228)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHC
Confidence            9998887754

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.86  E-value=8.9e-06  Score=64.55  Aligned_cols=37  Identities=16%  Similarity=0.270  Sum_probs=30.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~   73 (204)
                      +..++|.|+||+||||+++.|++.++..++.++...+
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            4458999999999999999999999866666665543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.86  E-value=5.6e-06  Score=61.56  Aligned_cols=30  Identities=23%  Similarity=0.330  Sum_probs=24.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHH-hcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTN-YLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~-~~~~~~~~   67 (204)
                      .-++|.|+||+||||+++.|++ .++..++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~i~   33 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEEec
Confidence            3488999999999999999999 56654443

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.86  E-value=7.9e-06  Score=63.24  Aligned_cols=31  Identities=23%  Similarity=0.436  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.|+||+||||+++.|+..++..++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            3488999999999999999999999877764

>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=97.85  E-value=3.9e-05  Score=58.79  Aligned_cols=40  Identities=23%  Similarity=0.164  Sum_probs=32.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      |++.+.-++++||||+|||+++..++...+..+++++...
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            4666666899999999999999999986677777777654

>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=97.85  E-value=4.2e-05  Score=63.70  Aligned_cols=68  Identities=13%  Similarity=0.149  Sum_probs=44.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC---------------------hHHHHHHHHh---
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE---------------------NMELRNMLIA---   85 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~---------------------~~~~~~~~~~---   85 (204)
                      |++.+.-++++||||+|||+|+..++..+   +..+.+++......                     ...+.+++..   
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            34445558999999999999999988765   55666666543111                     1122222221   


Q ss_pred             cCCCeEEEEecCCcc
Q 041769           86 TKNKSILVVGDIDYL  100 (204)
Q Consensus        86 ~~~~~il~iDeid~~  100 (204)
                      ...+.+|+||++..+
T Consensus       137 ~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          137 SGALDIIVIDSVAAL  151 (349)
T ss_dssp             TTCCSEEEEECGGGC
T ss_pred             cCCCCEEEEcChHhh
Confidence            235789999998876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.84  E-value=8.9e-06  Score=61.50  Aligned_cols=31  Identities=23%  Similarity=0.460  Sum_probs=27.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.|+||+||||+++.|++.++..++..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            4589999999999999999999999776653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.84  E-value=5.6e-06  Score=65.91  Aligned_cols=32  Identities=28%  Similarity=0.556  Sum_probs=28.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..+.|.|++|+||||+++.|++.+|.+++..+
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            34999999999999999999999998877644

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.84  E-value=1.1e-05  Score=60.60  Aligned_cols=31  Identities=23%  Similarity=0.432  Sum_probs=27.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.|+||+||||+++.|+..++..++..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            4588999999999999999999999777654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.84  E-value=1.1e-05  Score=62.49  Aligned_cols=31  Identities=23%  Similarity=0.410  Sum_probs=27.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-++|.|+||+||||+++.|+..++..++..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            3488999999999999999999999876654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.84  E-value=9.1e-06  Score=63.22  Aligned_cols=32  Identities=19%  Similarity=0.378  Sum_probs=27.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-++|.|+||+||||+++.|+..++..++..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            34589999999999999999999998877654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.84  E-value=8.5e-06  Score=61.75  Aligned_cols=62  Identities=10%  Similarity=0.144  Sum_probs=36.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC--------ccC----------hHHHHHHHHhcC-CCeEEEEec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT--------FKE----------NMELRNMLIATK-NKSILVVGD   96 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~--------~~~----------~~~~~~~~~~~~-~~~il~iDe   96 (204)
                      -++++||+|+||||++..++..+   +..++.+....        +..          ......++.... ...+|+|||
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~dvviIDE   84 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIEEDTRGVFIDE   84 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCCTTEEEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhcCCCCEEEEEC
Confidence            37899999999999986665543   55555443220        000          011122222222 467999999


Q ss_pred             CCcc
Q 041769           97 IDYL  100 (204)
Q Consensus        97 id~~  100 (204)
                      ++.+
T Consensus        85 ~Q~~   88 (184)
T 2orw_A           85 VQFF   88 (184)
T ss_dssp             GGGS
T ss_pred             cccC
Confidence            9987

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.83  E-value=9.8e-06  Score=60.78  Aligned_cols=29  Identities=17%  Similarity=0.366  Sum_probs=25.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC-----CceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN-----FDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~   67 (204)
                      -++|.|+||+||||+++.|+..++     .+++.
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~   38 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVS   38 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEe
Confidence            488999999999999999999887     55555

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.81  E-value=1e-05  Score=60.41  Aligned_cols=29  Identities=21%  Similarity=0.303  Sum_probs=22.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      .-++|.|+||+||||+++.|++.++.+++
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            34889999999999999999999998876

>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=97.81  E-value=5.3e-05  Score=63.30  Aligned_cols=67  Identities=15%  Similarity=0.161  Sum_probs=45.4

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc---------------------ChHHHHHHHHh---c
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK---------------------ENMELRNMLIA---T   86 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~---------------------~~~~~~~~~~~---~   86 (204)
                      ++.+.-++++|+||+|||+|+..++..+   +..+++++.....                     ....+.+++..   .
T Consensus        60 l~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~  139 (356)
T 1u94_A           60 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS  139 (356)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhc
Confidence            5555669999999999999999988765   5677777763311                     11222233322   2


Q ss_pred             CCCeEEEEecCCcc
Q 041769           87 KNKSILVVGDIDYL  100 (204)
Q Consensus        87 ~~~~il~iDeid~~  100 (204)
                      ....+|+||.+..+
T Consensus       140 ~~~~lVVIDsl~~l  153 (356)
T 1u94_A          140 GAVDVIVVDSVAAL  153 (356)
T ss_dssp             TCCSEEEEECGGGC
T ss_pred             cCCCEEEEcCHHHh
Confidence            45678999998876

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.80  E-value=1.4e-05  Score=60.81  Aligned_cols=31  Identities=23%  Similarity=0.408  Sum_probs=27.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -++|.|+||+||||+++.|++.+|..++..+
T Consensus        17 ~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           17 VIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            4889999999999999999999988766643

>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=97.79  E-value=2.5e-05  Score=59.53  Aligned_cols=35  Identities=29%  Similarity=0.373  Sum_probs=27.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +.-+.|.||||+||||++++|++.+   |...+.++..
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d   62 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGD   62 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCc
Confidence            4448899999999999999999998   5544455543

>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=97.79  E-value=7.1e-05  Score=62.50  Aligned_cols=39  Identities=10%  Similarity=0.029  Sum_probs=30.4

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      ++.+.-++++||||+|||+|+..++..+   +..+++++...
T Consensus        58 i~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~   99 (356)
T 3hr8_A           58 YPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEH   99 (356)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence            4444558999999999999999999875   55677776543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.79  E-value=1.7e-05  Score=61.73  Aligned_cols=34  Identities=24%  Similarity=0.449  Sum_probs=28.1

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ...++-++|.||||+||+|.++.|++.+|...++
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~hIs   59 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFNHLS   59 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCEEEC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            3445568889999999999999999999876554

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.78  E-value=2.5e-05  Score=58.34  Aligned_cols=33  Identities=30%  Similarity=0.580  Sum_probs=28.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      .-+.|.|++|+||||+++.|+..+   |.+++.++.
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~   41 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   41 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECC
Confidence            347899999999999999999988   888887663

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.78  E-value=2.2e-05  Score=58.98  Aligned_cols=31  Identities=23%  Similarity=0.292  Sum_probs=27.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      +.|.|+||+||||+++.|++.+   |.+++..+.
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d~   36 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYRE   36 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            7899999999999999999988   888877653

>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=97.78  E-value=4.6e-05  Score=58.72  Aligned_cols=29  Identities=21%  Similarity=0.331  Sum_probs=24.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-+.|+||||+|||||++.++..+
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555558999999999999999999854

>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=97.77  E-value=1.6e-05  Score=62.10  Aligned_cols=31  Identities=23%  Similarity=0.369  Sum_probs=27.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ..++|.|+||+||||+++.|+..++..++..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            3489999999999999999999999776664

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.77  E-value=1.8e-05  Score=61.23  Aligned_cols=29  Identities=34%  Similarity=0.613  Sum_probs=25.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.|.||||+||||+++.|++.+|.+++.
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            48899999999999999999998866554

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.76  E-value=1e-05  Score=62.60  Aligned_cols=30  Identities=13%  Similarity=0.280  Sum_probs=26.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-++|.||||+||||+++.|+..++..++.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            448999999999999999999999876544

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.76  E-value=1.3e-05  Score=61.13  Aligned_cols=29  Identities=31%  Similarity=0.348  Sum_probs=25.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.+.|++|+||||+++.|++ +|.+++..+
T Consensus         4 i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            4 IGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            78999999999999999999 887776643

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.76  E-value=1.9e-05  Score=60.92  Aligned_cols=90  Identities=12%  Similarity=0.180  Sum_probs=53.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc------------------------cChHHHHHHHHh-cCCCeEEEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF------------------------KENMELRNMLIA-TKNKSILVV   94 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~-~~~~~il~i   94 (204)
                      ++|.||||+||+|.++.|++.+|.+.++  ..++                        ....-+.+++.. ......+++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~is--tGdllR~~i~~~t~lg~~~~~~~~~G~lvpd~iv~~lv~~~l~~~~~~il   80 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVHIS--TGDILREAVQKGTPLGKKAKEYMERGELVPDDLIIALIEEVFPKHGNVIF   80 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEE--HHHHHHHHHHHTCHHHHHHHHHHHHTCCCCHHHHHHHHHHHCCSSSCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEc--HHHHHHHHHHhcChhhhhHHHHHhcCCcCCHHHHHHHHHHhhccCCceEe
Confidence            7889999999999999999999876654  2222                        011112222222 233345778


Q ss_pred             ecCCcc-----chhhhhh-cc-ccceeEecCCCCHHHHHHHHHH
Q 041769           95 GDIDYL-----TLHILLR-SS-CMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus        95 Deid~~-----~~~a~~r-~~-R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                      |.+-.-     .+...+. .+ ..+..+.+..|.....+.+..+
T Consensus        81 DGfPRt~~Qa~~l~~~l~~~~~~~~~vi~l~v~~e~l~~Rl~~R  124 (206)
T 3sr0_A           81 DGFPRTVKQAEALDEMLEKKGLKVDHVLLFEVPDEVVIERLSGR  124 (206)
T ss_dssp             ESCCCSHHHHHHHHHHHHHTTCCCCEEEEEECCHHHHHHHHHTE
T ss_pred             cCCchhHHHHHHHHhhHHHhccccceeeecCCCHHHHHHHHhCC
Confidence            888654     2222222 22 4667777777777666655544

>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=97.76  E-value=1.7e-05  Score=62.58  Aligned_cols=32  Identities=19%  Similarity=0.379  Sum_probs=27.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-++|.||||+||||+++.|++.++...+..
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            44589999999999999999999998777654

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.75  E-value=1.4e-05  Score=61.63  Aligned_cols=29  Identities=17%  Similarity=0.246  Sum_probs=26.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.|+||+||||+++.|+..+|..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            78999999999999999999999877665

>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=97.74  E-value=5.8e-05  Score=58.67  Aligned_cols=40  Identities=15%  Similarity=0.139  Sum_probs=30.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHh--c-------CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNY--L-------NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~--~-------~~~~~~~~~~~   72 (204)
                      |++.+.-++|+||||+|||++++.++..  .       +..+++++...
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            4555666899999999999999999994  3       34566665544

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.73  E-value=2.3e-05  Score=64.52  Aligned_cols=32  Identities=28%  Similarity=0.591  Sum_probs=28.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..++++||+|+|||++++.||+.++..++.+|
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEecc
Confidence            45899999999999999999999998777765

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.72  E-value=1.7e-05  Score=60.57  Aligned_cols=29  Identities=28%  Similarity=0.370  Sum_probs=25.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.|.||+|+||||+++.|++ +|.+++..
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id~   32 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVDA   32 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccch
Confidence            378999999999999999998 88777653

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.72  E-value=2.2e-05  Score=59.39  Aligned_cols=28  Identities=25%  Similarity=0.685  Sum_probs=25.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.|.|+||+||||+++.|++.++..++.
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            7899999999999999999999876554

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.72  E-value=1.8e-05  Score=61.37  Aligned_cols=35  Identities=23%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+.++.+..+.|  +.|+||+|+||||+++.|++.+
T Consensus        11 ~~l~~isl~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           11 SSGLVPRGSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -----------CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             ccccCCceecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3455555555444  8899999999999999999987

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.71  E-value=0.00011  Score=61.66  Aligned_cols=68  Identities=16%  Similarity=0.191  Sum_probs=45.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc---------------------ChHHHHHHHHh---
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK---------------------ENMELRNMLIA---   85 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~---------------------~~~~~~~~~~~---   85 (204)
                      |++.+.-++++||||+|||+|+..++..+   +.++++++...-.                     ....+.+.+..   
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            35555568999999999999999888765   5677777754321                     11222222222   


Q ss_pred             cCCCeEEEEecCCcc
Q 041769           86 TKNKSILVVGDIDYL  100 (204)
Q Consensus        86 ~~~~~il~iDeid~~  100 (204)
                      .....+|+||.+..+
T Consensus       150 ~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          150 SGAIDVVVVDSVAAL  164 (366)
T ss_dssp             TTCCSEEEEECTTTC
T ss_pred             cCCCCEEEEeChHHh
Confidence            235779999999876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.70  E-value=2.7e-05  Score=60.55  Aligned_cols=29  Identities=17%  Similarity=0.426  Sum_probs=25.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.|+||+||||+++.|+..++..++..
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            78999999999999999999998766554

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.66  E-value=4.7e-05  Score=58.63  Aligned_cols=39  Identities=21%  Similarity=0.121  Sum_probs=29.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+..++++||||+|||+|++.++..+   +..++.++..
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            45555568999999999999999999765   4566665543

>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=97.66  E-value=3.5e-05  Score=60.68  Aligned_cols=30  Identities=20%  Similarity=0.486  Sum_probs=25.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      +.-+.|.||||+||||+++.|++.+|....
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            345889999999999999999988876543

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.65  E-value=1.8e-05  Score=59.36  Aligned_cols=30  Identities=27%  Similarity=0.469  Sum_probs=24.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC---CceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN---FDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~   69 (204)
                      ++|.|+||+||||+++.|++.++   .++..++
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~   36 (194)
T 1nks_A            4 GIVTGIPGVGKSTVLAKVKEILDNQGINNKIIN   36 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCceEEEEE
Confidence            78999999999999999999886   2344444

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.65  E-value=2.9e-05  Score=63.41  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.|.||+|+||||+++.||+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            348899999999999999999976

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=97.65  E-value=2.7e-05  Score=59.41  Aligned_cols=30  Identities=27%  Similarity=0.357  Sum_probs=26.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.|.|++||||||+++.|+..+|.+++..|
T Consensus        15 IgltG~~GSGKSTva~~L~~~lg~~vid~D   44 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKYGAHVVNVD   44 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCEEEECc
Confidence            789999999999999999999898877643

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.64  E-value=4.2e-05  Score=60.88  Aligned_cols=33  Identities=33%  Similarity=0.419  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh---cCCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY---LNFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~---~~~~~~~~~~   70 (204)
                      .-++|.|+||+||||+++.|+..   .|..++.++.
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~   40 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGS   40 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECc
Confidence            34889999999999999999998   6777775543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.64  E-value=3.7e-05  Score=57.66  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.|.||||+||||+++.|++.++
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3488999999999999999999764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.64  E-value=2.8e-05  Score=61.29  Aligned_cols=37  Identities=16%  Similarity=0.087  Sum_probs=24.1

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .+.++.+..+.|  +.|.||+|+||||+++.|++.+|..
T Consensus        14 ~l~~isl~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           14 GTENLYFQSMRPFLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             ---------CCSEEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             eecceeccCCCCEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            445555554444  7899999999999999999988753

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.63  E-value=4.1e-05  Score=57.60  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.|.||||+||||+++.|++..+.
T Consensus         5 i~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEECCCCCcHHHHHHHHhcccCC
Confidence            789999999999999999987654

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=97.63  E-value=3e-05  Score=58.93  Aligned_cols=31  Identities=23%  Similarity=0.276  Sum_probs=27.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+.+.|++|+||||+++.|++.+|.+++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccc
Confidence            4789999999999999999999998776643

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.63  E-value=4.4e-05  Score=57.90  Aligned_cols=33  Identities=12%  Similarity=0.146  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-CCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-NFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-~~~~~~~~~   70 (204)
                      .-+.|.|++|+||||+++.|++.+ |.+++.++.
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~~   38 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESIPANTIKYLNF   38 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEES
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEec
Confidence            348899999999999999999998 576766543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.61  E-value=4.3e-05  Score=58.01  Aligned_cols=25  Identities=32%  Similarity=0.658  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.|.||+|+||||+++.|++.++
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999999864

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.60  E-value=3.7e-05  Score=58.39  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.-+.|.||||+||||+++.|++.+
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4458899999999999999999987

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.60  E-value=5e-05  Score=58.34  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=22.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-+.|.||+|+||||+++.|++.++.
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            34889999999999999999998754

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.59  E-value=6.1e-05  Score=59.69  Aligned_cols=30  Identities=33%  Similarity=0.583  Sum_probs=25.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.|.||+|+||||+++.|++.+|..++.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            348899999999999999999988876543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.59  E-value=5.4e-05  Score=59.58  Aligned_cols=30  Identities=33%  Similarity=0.416  Sum_probs=26.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.+.||||+||||+++.|++.+|..++.
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            458899999999999999999999876654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.58  E-value=5e-05  Score=58.05  Aligned_cols=26  Identities=27%  Similarity=0.492  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-++|.||||+||||+++.|+..++
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            34488999999999999999999885

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.58  E-value=4e-05  Score=58.36  Aligned_cols=26  Identities=23%  Similarity=0.414  Sum_probs=23.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -++|.|+||+||||+++.|++.++..
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            48899999999999999999998763

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.58  E-value=0.0002  Score=55.90  Aligned_cols=62  Identities=13%  Similarity=0.318  Sum_probs=40.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC-------cc-------------ChHHHHHHHHhc---CCCeEEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT-------FK-------------ENMELRNMLIAT---KNKSILV   93 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~-------~~-------------~~~~~~~~~~~~---~~~~il~   93 (204)
                      ++++||+|+||||++..++..+   |..++.++...       +.             ...++.+.+...   ..+.+|+
T Consensus        15 ~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dvVi   94 (223)
T 2b8t_A           15 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIG   94 (223)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCEEE
Confidence            6788999999999888877766   56666663221       10             012333333332   2467999


Q ss_pred             EecCCccc
Q 041769           94 VGDIDYLT  101 (204)
Q Consensus        94 iDeid~~~  101 (204)
                      |||++.++
T Consensus        95 IDEaQ~l~  102 (223)
T 2b8t_A           95 IDEVQFFD  102 (223)
T ss_dssp             ECSGGGSC
T ss_pred             EecCccCc
Confidence            99999874

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.58  E-value=5.4e-05  Score=57.90  Aligned_cols=31  Identities=26%  Similarity=0.239  Sum_probs=24.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+||||+++.|++.++..+..+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~~~~~i~~v   37 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALARTLGERVALL   37 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHGGGEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCeEEE
Confidence            3478999999999999999999887333333

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.57  E-value=4.5e-05  Score=57.75  Aligned_cols=31  Identities=29%  Similarity=0.486  Sum_probs=26.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .-+.|.|++|+||||+++.|++. |.+++..+
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~~-g~~~id~d   39 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRSW-GYPVLDLD   39 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT-TCCEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHC-CCEEEccc
Confidence            34889999999999999999998 87776543

>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=97.56  E-value=4e-05  Score=58.56  Aligned_cols=29  Identities=24%  Similarity=0.316  Sum_probs=24.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-CCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-NFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-~~~~~~   67 (204)
                      -+.+.|+||+||||+++.|++.+ +..++.
T Consensus        23 ~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~   52 (207)
T 2qt1_A           23 IIGISGVTNSGKTTLAKNLQKHLPNCSVIS   52 (207)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSTTEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCcEEEe
Confidence            37899999999999999999987 554444

>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=97.56  E-value=0.00013  Score=59.89  Aligned_cols=40  Identities=15%  Similarity=0.210  Sum_probs=31.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---------CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---------NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---------~~~~~~~~~~~   72 (204)
                      |++.+.-++++||||+|||+++..++...         +..+++++...
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            45555568999999999999999999875         45677777654

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.55  E-value=6.1e-05  Score=57.75  Aligned_cols=34  Identities=26%  Similarity=0.437  Sum_probs=26.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC---CceEEeec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLEL   70 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~   70 (204)
                      +.-+.+.||||+|||||++.|++.+.   .....+..
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~~~g~~~g~v~~   58 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPM   58 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEec
Confidence            33488999999999999999999885   33444443

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.55  E-value=2.1e-05  Score=65.51  Aligned_cols=29  Identities=28%  Similarity=0.498  Sum_probs=26.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .++|+|+||+||||++++||+.++.+++.
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            48999999999999999999999877644

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.54  E-value=4.3e-05  Score=58.30  Aligned_cols=25  Identities=32%  Similarity=0.547  Sum_probs=22.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.|+||+|+||||+++.|++.+.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            4489999999999999999998763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.54  E-value=0.00013  Score=72.36  Aligned_cols=68  Identities=18%  Similarity=0.268  Sum_probs=50.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh------------------------HHHHHHHHh
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN------------------------MELRNMLIA   85 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~------------------------~~~~~~~~~   85 (204)
                      +++.+..++++||||||||+|+.+++.+.   |.++.++++......                        ..+...+..
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~ 1156 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1156 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHH
Confidence            46677779999999999999999988765   778888877654211                        122233334


Q ss_pred             cCCCeEEEEecCCcc
Q 041769           86 TKNKSILVVGDIDYL  100 (204)
Q Consensus        86 ~~~~~il~iDeid~~  100 (204)
                      ...+.+|+||++..+
T Consensus      1157 ~~~~dlvVIDsl~~L 1171 (2050)
T 3cmu_A         1157 SGAVDVIVVDSVAAL 1171 (2050)
T ss_dssp             HTCCSEEEESCGGGC
T ss_pred             hCCCCEEEECCcccc
Confidence            467899999999887

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.53  E-value=5.7e-05  Score=57.88  Aligned_cols=28  Identities=25%  Similarity=0.434  Sum_probs=23.3

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+.-+.|.||+|+||||++++|++.+.
T Consensus        18 ~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           18 AVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3344488999999999999999999875

>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=97.53  E-value=0.0001  Score=62.69  Aligned_cols=59  Identities=17%  Similarity=0.164  Sum_probs=37.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHh-cCCCeEEEEecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIA-TKNKSILVVGDID   98 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~il~iDeid   98 (204)
                      .-++++|+||+||||+++.|++.++..++  +...+..-..+...+.. ...+..+++|...
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~~~~~~i--~~D~~~~~~~~~~~~~~~l~~g~~vIiD~~~  318 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVSAGYVHV--NRDTLGSWQRCVSSCQAALRQGKRVVIDNTN  318 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGGGTCEEC--CGGGSCSHHHHHHHHHHHHHTTCCEEEESCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcCcEEE--ccchHHHHHHHHHHHHHHHhcCCcEEEeCCC
Confidence            34889999999999999999999876544  44444333223222222 2234456677654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.53  E-value=6.3e-05  Score=62.88  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=21.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.|+||+|+||||+++.||+.+
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHhhc
Confidence            348899999999999999999976

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=97.52  E-value=5.4e-05  Score=62.66  Aligned_cols=31  Identities=29%  Similarity=0.463  Sum_probs=27.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -++|.||+|+|||+++..||+.++..++..|
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~D   72 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPLEVINSD   72 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCEEEEECC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCCcEEccc
Confidence            4889999999999999999999987776654

>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=97.52  E-value=7.7e-05  Score=58.94  Aligned_cols=27  Identities=26%  Similarity=0.285  Sum_probs=24.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.|++|+||||+++.|+..+|.+
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            348899999999999999999999876

>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=97.52  E-value=6.7e-05  Score=61.35  Aligned_cols=36  Identities=31%  Similarity=0.433  Sum_probs=27.9

Q ss_pred             HHHHHhCC--CCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           27 EFYRNVGK--AWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        27 ~~~~~~~~--~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+..+.+  +.+..+.|+||+|+|||||+++|++.+.
T Consensus       114 ~vL~~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~  151 (305)
T 2v9p_A          114 NALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFLG  151 (305)
T ss_dssp             HHHHHHHHTCTTCSEEEEECSSSSSHHHHHHHHHHHHT
T ss_pred             hhhccceEEecCCCEEEEECCCCCcHHHHHHHHhhhcC
Confidence            34555454  4444589999999999999999999873

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.51  E-value=3.2e-05  Score=59.06  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=22.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-++|.|+||+||||+++.|++.++.
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            34889999999999999999998754

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.51  E-value=8.6e-05  Score=56.38  Aligned_cols=25  Identities=32%  Similarity=0.482  Sum_probs=22.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .++|+||+|+||||+++.|....+.
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~~~   27 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCC
Confidence            4899999999999999999988754

>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=97.50  E-value=0.00025  Score=58.72  Aligned_cols=40  Identities=15%  Similarity=0.067  Sum_probs=31.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---------CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---------NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---------~~~~~~~~~~~   72 (204)
                      |++.+.-++++||||+|||+|+..++...         +..+++++...
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            45555558999999999999999999863         45677776654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.50  E-value=0.00077  Score=59.37  Aligned_cols=22  Identities=32%  Similarity=0.295  Sum_probs=19.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHH
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +-+.++||+|+|||++|..+++
T Consensus       148 ~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          148 GWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEcCCCCCHHHHHHHHHh
Confidence            4588999999999999999864

>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=97.49  E-value=9.6e-05  Score=62.22  Aligned_cols=27  Identities=26%  Similarity=0.470  Sum_probs=23.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||+|+|||||+++|++.....-
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~~p~~   57 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLETITS   57 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEEcCCCchHHHHHHHHHcCCCCCC
Confidence            378999999999999999999775543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=97.49  E-value=5.8e-05  Score=58.11  Aligned_cols=30  Identities=33%  Similarity=0.445  Sum_probs=25.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.|.|++|+||||+++.|+. +|.+++..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            3488999999999999999998 88776664

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.49  E-value=0.00012  Score=54.84  Aligned_cols=32  Identities=28%  Similarity=0.582  Sum_probs=25.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC---CceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~   69 (204)
                      .-++|.|+||+||||+++.|+..++   ..+..++
T Consensus        14 ~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~   48 (186)
T 2yvu_A           14 IVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLD   48 (186)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEee
Confidence            3488999999999999999999874   4455554

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.49  E-value=8.9e-05  Score=59.25  Aligned_cols=30  Identities=37%  Similarity=0.592  Sum_probs=24.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+..+.-+++.||+|+||||+++++++.+.
T Consensus        21 ~i~~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           21 CHRKMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             GGCSSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             hhCCCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            333344488999999999999999999763

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=97.48  E-value=7.8e-05  Score=61.03  Aligned_cols=33  Identities=24%  Similarity=0.576  Sum_probs=28.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.-+++.||+|+|||+++..||+.++..+++.|
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~D   42 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVD   42 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEecc
Confidence            345889999999999999999999987776654

>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=97.47  E-value=0.00019  Score=59.70  Aligned_cols=29  Identities=21%  Similarity=0.331  Sum_probs=24.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-+.|+||||+|||+|++.++..+
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444558999999999999999999987

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.47  E-value=7.6e-05  Score=58.68  Aligned_cols=32  Identities=19%  Similarity=0.284  Sum_probs=25.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-+.+.||+|+|||||+++|++.....--.+
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~I   62 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLDKPTEGEV   62 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCCCCceEE
Confidence            33488999999999999999999876654443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.47  E-value=0.00011  Score=57.23  Aligned_cols=40  Identities=23%  Similarity=0.193  Sum_probs=30.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.+.-++++||||+|||+++..++...   +..+++++...
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            45556668999999999999988777654   56777776543

>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=97.47  E-value=7e-05  Score=57.49  Aligned_cols=32  Identities=16%  Similarity=0.197  Sum_probs=26.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.+++|.||+|+|||+++..|++..+ .++..|
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            45699999999999999999999876 555433

>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=97.46  E-value=0.0001  Score=65.33  Aligned_cols=33  Identities=30%  Similarity=0.353  Sum_probs=26.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      ..+++.||||||||+++.+++..+   +.++..+..
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            448899999999999999998865   666665543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=97.45  E-value=7.2e-05  Score=62.02  Aligned_cols=31  Identities=19%  Similarity=0.363  Sum_probs=26.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+++.||+|+|||++++.||..++..++..|
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~~~iis~D   39 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFNGEIISGD   39 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTEEEEECC
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcCCceeccc
Confidence            4889999999999999999999986555543

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.45  E-value=9e-05  Score=57.67  Aligned_cols=26  Identities=38%  Similarity=0.554  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-+.|.||+|+|||||+++|++...
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            34488999999999999999999875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.45  E-value=0.00017  Score=60.33  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=23.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||+|+|||||+++|++.....-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~~   57 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIYKPTS   57 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCCCc
Confidence            378999999999999999999765443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.44  E-value=0.0004  Score=56.47  Aligned_cols=36  Identities=19%  Similarity=0.343  Sum_probs=28.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~   72 (204)
                      +.-++|+||+|+||||++..||..+    |..+..++...
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            3448899999999999999999766    55676666543

>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=97.43  E-value=0.0015  Score=61.89  Aligned_cols=58  Identities=19%  Similarity=0.189  Sum_probs=36.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHh-------cCCceEEeecCC
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY-------LNFDVYDLELTT   72 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~-------~~~~~~~~~~~~   72 (204)
                      .++|.++..+++.+.+...           -...+-+.++|+.|+|||+||+.+++.       +...++.++.+.
T Consensus       125 ~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          125 IFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             SCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             eeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            4667766666654444211           011344889999999999999988876       233455565544

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.43  E-value=0.00013  Score=57.05  Aligned_cols=30  Identities=23%  Similarity=0.432  Sum_probs=26.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.|.|++|+||||+++.|++.+|.+++.
T Consensus        17 ~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           17 IQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            348899999999999999999999876655

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.43  E-value=4.7e-05  Score=58.18  Aligned_cols=25  Identities=24%  Similarity=0.193  Sum_probs=22.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-++|.|+|||||||+++.|++.++
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4488999999999999999999864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.42  E-value=7.6e-05  Score=58.23  Aligned_cols=31  Identities=19%  Similarity=0.169  Sum_probs=24.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+|||||+++|++.....--.+
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~i   61 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLDAPTEGKV   61 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            3478999999999999999999876543333

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=97.42  E-value=8.7e-05  Score=57.03  Aligned_cols=30  Identities=27%  Similarity=0.373  Sum_probs=26.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.+.|++|+||||+++.|++.+|.+++..
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~g~~~~~~   34 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASELSMIYVDT   34 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecC
Confidence            488999999999999999999999877664

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.41  E-value=0.00022  Score=58.64  Aligned_cols=34  Identities=18%  Similarity=0.131  Sum_probs=26.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC-----ceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF-----DVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~-----~~~~~~~~~   72 (204)
                      -+.+.||+|+||||+++.|++.++.     .+..+...+
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~  132 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDG  132 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecc
Confidence            4789999999999999999998752     455555444

>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=97.40  E-value=0.00013  Score=55.96  Aligned_cols=36  Identities=25%  Similarity=0.368  Sum_probs=27.8

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcC----CceEEeec
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLN----FDVYDLEL   70 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~----~~~~~~~~   70 (204)
                      ..+.-++|.|+||+||||+++.|++.++    .+++.++.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~   62 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   62 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECC
Confidence            3344588999999999999999999875    44666653

>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=97.39  E-value=0.00034  Score=68.65  Aligned_cols=68  Identities=16%  Similarity=0.191  Sum_probs=49.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccC---------------------hHHHHHHHHhc--
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKE---------------------NMELRNMLIAT--   86 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~---------------------~~~~~~~~~~~--   86 (204)
                      |++.+..++|+||||||||+|+..++...   |..+++++......                     ...+.+++...  
T Consensus        30 Gi~~G~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~~~~~l~~~~lg~dl~~i~i~~p~t~e~l~~ll~~L~~  109 (1706)
T 3cmw_A           30 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  109 (1706)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCeEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecCccHHHHHHhhccCccceeeeccCcHHHHHHHHHHHHh
Confidence            57777789999999999999999988763   67788887765311                     12223333332  


Q ss_pred             -CCCeEEEEecCCcc
Q 041769           87 -KNKSILVVGDIDYL  100 (204)
Q Consensus        87 -~~~~il~iDeid~~  100 (204)
                       ..+.+|+||++..+
T Consensus       110 ~~~~~LVVIDSLt~L  124 (1706)
T 3cmw_A          110 SGAVDVIVVDSVAAL  124 (1706)
T ss_dssp             HTCCSEEEESCSTTC
T ss_pred             ccCCCEEEEcchhhh
Confidence             56789999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.39  E-value=0.00019  Score=54.70  Aligned_cols=34  Identities=18%  Similarity=0.264  Sum_probs=27.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .-+.+.|++|+||||+++.|++.+   +.++..++..
T Consensus        23 ~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           23 LVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            348899999999999999999976   5566665443

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=97.38  E-value=9.4e-05  Score=60.66  Aligned_cols=31  Identities=23%  Similarity=0.301  Sum_probs=26.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+++.||+|+|||+++..||+.++..+++.|
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis~D   35 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVISGD   35 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEECC
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceeecC
Confidence            4789999999999999999999987666554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.38  E-value=6.6e-05  Score=55.87  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=17.9

Q ss_pred             CceeEEECCCCCcHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAM   57 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~l   57 (204)
                      +.-+.++||||+|||||++++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            344889999999999999964

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.38  E-value=0.00011  Score=58.67  Aligned_cols=31  Identities=16%  Similarity=0.248  Sum_probs=25.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+|||||+++|++.+...--.+
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i   63 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLEKPSEGAI   63 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            3378999999999999999999876544333

>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=97.38  E-value=0.00019  Score=57.93  Aligned_cols=38  Identities=18%  Similarity=0.105  Sum_probs=29.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~   70 (204)
                      +++.+.-+++.||||+|||||++.++..+    |.+++.++.
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~   72 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            45555558999999999999999999876    435655544

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.37  E-value=0.00014  Score=57.38  Aligned_cols=30  Identities=27%  Similarity=0.459  Sum_probs=24.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.+.||+|+|||||+++|++.....--.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~   54 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKPDRGE   54 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            457899999999999999999987654333

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=97.37  E-value=7e-05  Score=60.49  Aligned_cols=30  Identities=23%  Similarity=0.315  Sum_probs=24.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-CCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-NFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-~~~~~~   67 (204)
                      .-++|.|+||+||||+++.|+..+ +..++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i~   33 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEec
Confidence            348899999999999999999974 555443

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.37  E-value=0.00014  Score=55.64  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.|+||+|+|||||++.|++.++
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECcCCCCHHHHHHHHHhhCC
Confidence            4488999999999999999999875

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.36  E-value=0.00035  Score=62.62  Aligned_cols=33  Identities=24%  Similarity=0.428  Sum_probs=24.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      .+++||||||||+++-.+...+   +..+..+..++
T Consensus       208 ~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN  243 (646)
T 4b3f_X          208 AIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSN  243 (646)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSH
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCch
Confidence            7899999999998665555444   66776666554

>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=97.36  E-value=0.00011  Score=58.47  Aligned_cols=30  Identities=37%  Similarity=0.636  Sum_probs=24.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.+.||+|+|||||+++|++.+...--.+
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i   64 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFLKADEGRV   64 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            378999999999999999999876544333

>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=97.35  E-value=0.00011  Score=57.11  Aligned_cols=30  Identities=27%  Similarity=0.476  Sum_probs=24.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.+.||+|+|||||+++|++.+...--.+
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I   66 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYLKPLKGEI   66 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            388999999999999999999776544333

>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=97.35  E-value=0.00013  Score=58.39  Aligned_cols=30  Identities=27%  Similarity=0.541  Sum_probs=24.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.|.||+|+|||||+++|++.+...--.
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~~p~~G~   80 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLEDFDEGE   80 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCCCCCCcE
Confidence            338899999999999999999987654333

>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=97.34  E-value=0.0001  Score=58.44  Aligned_cols=33  Identities=30%  Similarity=0.482  Sum_probs=26.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~   71 (204)
                      .-+.+.||+|+|||||+++|++.+... -.+...
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~~p~-G~i~~~   59 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMTSGK-GSIQFA   59 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCE-EEEEET
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCCC-eEEEEC
Confidence            348899999999999999999988765 555443

>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=97.34  E-value=0.00012  Score=59.05  Aligned_cols=30  Identities=23%  Similarity=0.303  Sum_probs=24.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.|.||+|+|||||+++|++.+...--.+
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I   65 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGILKPSSGRI   65 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCeEE
Confidence            388999999999999999999876544333

>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=97.33  E-value=0.00012  Score=57.19  Aligned_cols=27  Identities=26%  Similarity=0.381  Sum_probs=23.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.||+|+|||||+++|++.+...
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~~p~   61 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGELEPS   61 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCC
Confidence            348899999999999999999987544

>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=97.33  E-value=0.00012  Score=57.63  Aligned_cols=31  Identities=19%  Similarity=0.348  Sum_probs=25.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+|||||+++|++.+...--.+
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i   63 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLVRAQKGKI   63 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            3388999999999999999999876554443

>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=97.33  E-value=0.00012  Score=59.07  Aligned_cols=29  Identities=31%  Similarity=0.330  Sum_probs=25.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.|.|++|+||||+++.|+ .+|.+++..
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            38899999999999999999 578777654

>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=97.33  E-value=9.3e-05  Score=58.25  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.-+.+.||+|+|||||+++|++.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   57 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEMDK   57 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            334889999999999999999997643

>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=97.32  E-value=0.00015  Score=57.84  Aligned_cols=31  Identities=19%  Similarity=0.356  Sum_probs=25.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.|.||+|+|||||+++|++.+...--.+
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~~p~~G~I   72 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLIKPSSGIV   72 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            3488999999999999999999876544333

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.30  E-value=0.00015  Score=58.14  Aligned_cols=31  Identities=29%  Similarity=0.366  Sum_probs=25.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.|.||+|+|||||+++|++.+...--.+
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~~p~~G~I   76 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLYQPTGGKV   76 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCEE
Confidence            3488999999999999999999876544333

>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=97.30  E-value=0.00014  Score=57.63  Aligned_cols=31  Identities=19%  Similarity=0.273  Sum_probs=25.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.|.||+|+|||||+++|++.+...--.+
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~I   66 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFYIPENGQV   66 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            3488999999999999999999876554443

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.30  E-value=7.3e-05  Score=58.19  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=15.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHH-Hhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMT-NYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la-~~~   61 (204)
                      .-+.|.||+|+||||+++.|+ +.+
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            338899999999999999999 766

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.29  E-value=0.00024  Score=55.27  Aligned_cols=39  Identities=23%  Similarity=0.197  Sum_probs=29.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHh----cCCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNY----LNFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~----~~~~~~~~~~~   71 (204)
                      |++.+.-++++|+||+|||+++..+|..    .+.++++++..
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E   68 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLE   68 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeeccc
Confidence            4555566999999999999998876643    26677776654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.29  E-value=0.00016  Score=57.81  Aligned_cols=31  Identities=23%  Similarity=0.424  Sum_probs=25.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+|||||+++|++.+...--.+
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~~p~~G~I   64 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLIEPTSGDV   64 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCCCCcEE
Confidence            3488999999999999999999876544333

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.29  E-value=0.00014  Score=55.32  Aligned_cols=22  Identities=50%  Similarity=0.918  Sum_probs=20.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|.||+|+||||+++.+++.+
T Consensus         4 i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            4 VFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHhhc
Confidence            7899999999999999999986

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.28  E-value=0.00014  Score=56.20  Aligned_cols=24  Identities=33%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHh
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.-+.+.||+|+|||||++++++.
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            334889999999999999999986

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.28  E-value=0.00015  Score=58.52  Aligned_cols=30  Identities=27%  Similarity=0.531  Sum_probs=24.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.|.||+|+|||||+++|++.+...--.+
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~~p~~G~I   78 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYEPATSGTV   78 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCCeEE
Confidence            378999999999999999999876554443

>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=97.27  E-value=0.00021  Score=59.93  Aligned_cols=33  Identities=33%  Similarity=0.543  Sum_probs=25.6

Q ss_pred             HHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           30 RNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        30 ~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+.+..+.-++++||+|+||||+++++++.+.
T Consensus       129 ~~l~~~~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          129 LELCHRKMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             HHHTTSSSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            333344444589999999999999999999773

>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=97.27  E-value=0.0001  Score=58.12  Aligned_cols=27  Identities=22%  Similarity=0.469  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.-+.+.||+|+|||||+++|++.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   54 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFYQP   54 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            334889999999999999999997754

>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=97.27  E-value=0.00015  Score=63.01  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -++|+||+|+||||+++.|++.+
T Consensus       295 VI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          295 VILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCcccHHHHHHHHHHHh
Confidence            48899999999999999999976

>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=97.27  E-value=0.00013  Score=58.51  Aligned_cols=29  Identities=24%  Similarity=0.230  Sum_probs=23.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-++++||||+|||||+..++..+
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            44445558999999999999999999754

>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=97.25  E-value=0.00043  Score=58.98  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=22.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +++.||+|+||||+++++++.+..
T Consensus       170 i~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          170 ILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhhcCC
Confidence            789999999999999999998853

>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=97.25  E-value=0.0002  Score=59.76  Aligned_cols=27  Identities=26%  Similarity=0.580  Sum_probs=23.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||+|+|||||+++|++.....-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~~p~~   58 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFEQPDS   58 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCCCC
Confidence            378999999999999999999775543

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.25  E-value=0.00028  Score=58.70  Aligned_cols=41  Identities=20%  Similarity=0.240  Sum_probs=31.4

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ..++.+ ++..+|  +.|.||+|+|||||++.|++........+
T Consensus        60 ~ald~l-l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~~~g~i  102 (347)
T 2obl_A           60 RAIDGL-LTCGIGQRIGIFAGSGVGKSTLLGMICNGASADIIVL  102 (347)
T ss_dssp             HHHHHH-SCEETTCEEEEEECTTSSHHHHHHHHHHHSCCSEEEE
T ss_pred             EEEEee-eeecCCCEEEEECCCCCCHHHHHHHHhcCCCCCEEEE
Confidence            344555 555555  88999999999999999999987665443

>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=97.22  E-value=0.00013  Score=58.52  Aligned_cols=27  Identities=37%  Similarity=0.640  Sum_probs=23.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.||+|+|||||+++|++.+...
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~~p~   64 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYLSPS   64 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            348899999999999999999977543

>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=97.22  E-value=0.00034  Score=56.74  Aligned_cols=26  Identities=35%  Similarity=0.373  Sum_probs=22.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-+.+.||+|+||||+++.|++.++.
T Consensus        32 ~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           32 LFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34789999999999999999998853

>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=97.21  E-value=0.00047  Score=56.36  Aligned_cols=28  Identities=18%  Similarity=0.179  Sum_probs=23.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHh
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |++.+.-++++||||+|||+++..++..
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3454555899999999999999999875

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.21  E-value=0.00038  Score=57.59  Aligned_cols=36  Identities=28%  Similarity=0.371  Sum_probs=27.6

Q ss_pred             HHHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           26 KEFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        26 ~~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...+..+.+....|  +.|.||||+|||||++++++.+
T Consensus        42 ~~~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           42 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            34556666544444  7899999999999999999865

>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=97.21  E-value=0.00047  Score=54.04  Aligned_cols=33  Identities=24%  Similarity=0.204  Sum_probs=27.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELT   71 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~   71 (204)
                      .++++||+|+|||.++.+++...+..++.+-+.
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            489999999999999999998887666665443

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.21  E-value=0.00017  Score=57.26  Aligned_cols=28  Identities=21%  Similarity=0.228  Sum_probs=23.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+.+.||+|+|||||+++|++.+...-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~~p~~   59 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIHRPIQ   59 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSSCCSE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            3488999999999999999999875543

>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=97.21  E-value=0.00023  Score=58.32  Aligned_cols=25  Identities=20%  Similarity=0.196  Sum_probs=22.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.+.||+|+|||||++.|++.+.
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHhhcc
Confidence            3478999999999999999999874

>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=97.20  E-value=0.00028  Score=59.00  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||+|+|||||+++|++.....-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~~   57 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIYKPTS   57 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEEcCCCchHHHHHHHHHCCCCCCc
Confidence            378999999999999999999775543

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.20  E-value=0.0004  Score=59.52  Aligned_cols=41  Identities=24%  Similarity=0.312  Sum_probs=32.0

Q ss_pred             HHHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           27 EFYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        27 ~~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ..++.+ ++.+.|  +.|.||+|+|||||++.|++........+
T Consensus       146 ~vld~v-l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~G~i  188 (438)
T 2dpy_A          146 RAINAL-LTVGRGQRMGLFAGSGVGKSVLLGMMARYTRADVIVV  188 (438)
T ss_dssp             HHHHHH-SCCBTTCEEEEEECTTSSHHHHHHHHHHHSCCSEEEE
T ss_pred             eEEeee-EEecCCCEEEEECCCCCCHHHHHHHHhcccCCCeEEE
Confidence            355666 666665  88999999999999999999987655443

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.19  E-value=0.00065  Score=51.85  Aligned_cols=32  Identities=19%  Similarity=0.418  Sum_probs=25.7

Q ss_pred             eEEECCCCCcHH-HHHHHHHHhc--CCceEEeecC
Q 041769           40 YFLYGPPGTGKS-SLIAAMTNYL--NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT-~la~~la~~~--~~~~~~~~~~   71 (204)
                      .++|||.|+||| .|++++.+..  +..++.+...
T Consensus        23 ~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~   57 (195)
T 1w4r_A           23 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA   57 (195)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEET
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccc
Confidence            778999999999 8889888765  6677776543

>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=97.19  E-value=0.00017  Score=57.75  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.|.||+|+|||||+++|++..
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            348899999999999999999963

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=97.18  E-value=0.00025  Score=55.56  Aligned_cols=93  Identities=9%  Similarity=0.128  Sum_probs=55.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee-c-------C--------------CccChHHHHHH----HHhcCCCeEEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE-L-------T--------------TFKENMELRNM----LIATKNKSILV   93 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~-~-------~--------------~~~~~~~~~~~----~~~~~~~~il~   93 (204)
                      +.|.||||+||||+++.|+..++.+.++.. +       .              .+.....+..+    +.......-++
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g~~~is~gdllR~~~~~~t~lG~~i~~~~~~G~lvpdei~~~ll~~~l~~~~~~~g~I   90 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFGIPQISTGDMLRAAVKAGTPLGVEAKTYMDEGKLVPDSLIIGLVKERLKEADCANGYL   90 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCEECHHHHHHHHHHTTCHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHSGGGTTCEE
T ss_pred             eeeECCCCCCHHHHHHHHHHHhCCCeeechHHHHHhccCCChHHHHHHHHHhhccccccHHHHHHHHHHHhCcccCCCeE
Confidence            789999999999999999999998876642 0       0              00111111122    22211112356


Q ss_pred             EecCCccc--hhhhhhc-cccceeEecCCCCHHHHHHHHHHh
Q 041769           94 VGDIDYLT--LHILLRS-SCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus        94 iDeid~~~--~~a~~r~-~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      ||.+-.-.  ..++... ...+..|.+..|.....+.+..+.
T Consensus        91 LDGfPRt~~Qa~~L~~~~~~~d~VI~Ldvp~e~l~~Rl~~R~  132 (230)
T 3gmt_A           91 FDGFPRTIAQADAMKEAGVAIDYVLEIDVPFSEIIERMSGRR  132 (230)
T ss_dssp             EESCCCSHHHHHHHHHTTCCCSEEEEECCCHHHHHHHHHTEE
T ss_pred             ecCCCCcHHHHHHHHHhCCCccEEEEEeCCHHHHHHHHHcCC
Confidence            78875431  1122221 256788888888877777776654

>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=97.18  E-value=0.00061  Score=58.30  Aligned_cols=63  Identities=16%  Similarity=0.299  Sum_probs=43.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc--------------------------Ch-HHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK--------------------------EN-MELRNMLIATK   87 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~--------------------------~~-~~~~~~~~~~~   87 (204)
                      ..++++|+||+||||++..||..+   |..+..+++....                          .. ..+.+.+....
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~~~  179 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKFK  179 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHHhh
Confidence            358899999999999999999977   4566665543211                          00 11234445555


Q ss_pred             CCeEEEEecCCcc
Q 041769           88 NKSILVVGDIDYL  100 (204)
Q Consensus        88 ~~~il~iDeid~~  100 (204)
                      ...+++||.....
T Consensus       180 ~~D~vIIDT~G~~  192 (432)
T 2v3c_C          180 KADVLIIDTAGRH  192 (432)
T ss_dssp             SCSEEEEECCCSC
T ss_pred             CCCEEEEcCCCCc
Confidence            6678999998877

>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=97.18  E-value=0.00021  Score=53.27  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -.+|+||+|+|||+++++|+..++.
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l~~   52 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVLGG   52 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHcC
Confidence            3679999999999999999998753

>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=97.18  E-value=0.00032  Score=60.53  Aligned_cols=58  Identities=19%  Similarity=0.162  Sum_probs=37.7

Q ss_pred             eeEEECCCCCcHHHHHHHH-HHhcCCceEEeecCCccChHHHH-------------HHHHhcCCCeEEEEecCCcc
Q 041769           39 SYFLYGPPGTGKSSLIAAM-TNYLNFDVYDLELTTFKENMELR-------------NMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~l-a~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~il~iDeid~~  100 (204)
                      ++|+.|+||| ||.+++++ ++.++...+.....  .....+.             ..+ ..+..+++++||++.+
T Consensus       241 hVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~--ss~~gLt~s~r~~tG~~~~~G~l-~LAdgGvl~lDEIn~~  312 (506)
T 3f8t_A          241 HVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRR--TELTDLTAVLKEDRGWALRAGAA-VLADGGILAVDHLEGA  312 (506)
T ss_dssp             CEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGG--CCHHHHSEEEEESSSEEEEECHH-HHTTTSEEEEECCTTC
T ss_pred             eEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCC--CCccCceEEEEcCCCcccCCCee-EEcCCCeeehHhhhhC
Confidence            6999999999 99999999 77766555432111  0000010             000 1235789999999999

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.18  E-value=0.00026  Score=59.06  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=22.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.|.||+|+|||||+++|++.....
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~~p~   68 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLERPT   68 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            37899999999999999999976544

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.18  E-value=0.0003  Score=57.49  Aligned_cols=34  Identities=18%  Similarity=0.224  Sum_probs=26.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .-++++||+|+||||++..||..+   +..+..++..
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D  141 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD  141 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             eEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccc
Confidence            348899999999999999999877   5556555543

>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=97.17  E-value=0.0003  Score=59.08  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=22.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.|.||+|+|||||+++|++.....
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~~p~   64 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLEEPT   64 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCC
Confidence            37899999999999999999977544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.17  E-value=0.00015  Score=57.82  Aligned_cols=26  Identities=23%  Similarity=0.466  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-+.+.||+|+|||||+++|++.+.
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCC
Confidence            33488999999999999999999765

>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=97.17  E-value=0.00016  Score=57.26  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .-+.+.||+|+|||||+++|++.
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34889999999999999999996

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=97.16  E-value=0.00032  Score=52.96  Aligned_cols=32  Identities=19%  Similarity=0.197  Sum_probs=28.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      ++++|++|+|||++|..++.. +.+++++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCC
Confidence            689999999999999999988 88888877654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=97.16  E-value=0.00029  Score=53.95  Aligned_cols=29  Identities=14%  Similarity=0.191  Sum_probs=26.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.+.|++|+|||++++.||+.+|.+++.
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            48899999999999999999999999875

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=97.15  E-value=0.00091  Score=48.11  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|+..+....
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999988643

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=97.15  E-value=0.0016  Score=46.96  Aligned_cols=21  Identities=14%  Similarity=0.309  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999999764

>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=97.15  E-value=0.00029  Score=59.18  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.|.||+|+|||||+++|++.....
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~   56 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLEEPS   56 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCCCCC
Confidence            37899999999999999999977544

>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=97.14  E-value=0.00025  Score=59.04  Aligned_cols=28  Identities=21%  Similarity=0.539  Sum_probs=23.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+.|.||+|+|||||+++|++.....-
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl~~p~~   54 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGFHVPDS   54 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSSCCSE
T ss_pred             CEEEEECCCCccHHHHHHHHHcCCCCCC
Confidence            3478999999999999999999765443

>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=97.14  E-value=0.00078  Score=57.06  Aligned_cols=27  Identities=30%  Similarity=0.267  Sum_probs=21.7

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHH
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      |++.+.-+.|+||||+|||+|++.++.
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHH
Confidence            455555589999999999999997663

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=97.14  E-value=0.0001  Score=56.22  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=21.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.|.|++|+||||+++.|++.++
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            67999999999999999999884

>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=97.14  E-value=0.00042  Score=56.47  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.|.||+|+||||+++.|++.++
T Consensus        82 iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           82 IISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            478999999999999999999876

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=97.13  E-value=0.00026  Score=59.99  Aligned_cols=31  Identities=26%  Similarity=0.395  Sum_probs=26.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+++.||+|+|||+++..||..++..+++.|
T Consensus         4 ~i~i~GptgsGKttla~~La~~~~~~iis~D   34 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKFNGEVINSD   34 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHTEEEEECC
T ss_pred             EEEEECcchhhHHHHHHHHHHHCCCeEeecC
Confidence            3789999999999999999999987666543

>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=97.12  E-value=0.0003  Score=58.71  Aligned_cols=24  Identities=50%  Similarity=0.857  Sum_probs=21.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+++.||+|+||||+++++++.++
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhccc
Confidence            388999999999999999998873

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=97.11  E-value=0.00041  Score=52.02  Aligned_cols=28  Identities=25%  Similarity=0.376  Sum_probs=23.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      +.|++|.|+||+||||++..+... |..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r-G~~l   43 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR-GHQL   43 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCeE
Confidence            568999999999999999999884 5443

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=97.11  E-value=0.00032  Score=57.29  Aligned_cols=24  Identities=29%  Similarity=0.542  Sum_probs=21.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.++||+|+||||+++.||+.+
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH
Confidence            348899999999999999999977

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.11  E-value=0.0003  Score=56.23  Aligned_cols=31  Identities=26%  Similarity=0.503  Sum_probs=24.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-+.+.||+|+|||||+++|++.+ ..--.+
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~G~I   60 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL-PYSGNI   60 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS-CCEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC-CCCcEE
Confidence            3348899999999999999999977 543333

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.11  E-value=0.00026  Score=59.13  Aligned_cols=27  Identities=26%  Similarity=0.550  Sum_probs=23.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+++.||+|+||||++++|++.+..
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            344899999999999999999998754

>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=97.10  E-value=0.00025  Score=58.55  Aligned_cols=26  Identities=19%  Similarity=0.512  Sum_probs=23.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ..+++.||+|+||||++++|++.+..
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            44899999999999999999998854

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=97.10  E-value=0.0014  Score=48.70  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=21.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+++.|++|+|||+|++.+.+...
T Consensus        16 ki~vvG~~~~GKssL~~~l~~~~~   39 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYSKVP   39 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcc
Confidence            489999999999999999987653

>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=97.09  E-value=0.00024  Score=59.22  Aligned_cols=27  Identities=19%  Similarity=0.423  Sum_probs=23.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||+|+|||||+++|++.....-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~~p~~   59 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLDVPST   59 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCc
Confidence            378999999999999999999775443

>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=97.07  E-value=0.00044  Score=57.88  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=23.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.+.||+|+|||||+++|++.....-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~~p~~   82 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLERPTE   82 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEEcCCCchHHHHHHHHhcCCCCCc
Confidence            388999999999999999999876543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=97.07  E-value=0.0011  Score=47.70  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999864

>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=97.07  E-value=0.00027  Score=57.75  Aligned_cols=29  Identities=24%  Similarity=0.492  Sum_probs=24.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.|+||+|+|||||+++|++.+...--.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p~~G~  110 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDISSGC  110 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCCSEEE
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCCCCcE
Confidence            38899999999999999999988654333

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=97.06  E-value=0.00018  Score=58.24  Aligned_cols=35  Identities=17%  Similarity=0.313  Sum_probs=24.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC---CceEEeecCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELTTF   73 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~~~   73 (204)
                      -+.+.||+|+||||+++.|+..++   ..+..+++.++
T Consensus         7 iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~   44 (290)
T 1a7j_A            7 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   44 (290)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchh
Confidence            478999999999999999999876   34445554443

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.06  E-value=0.0012  Score=47.87  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999863

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.06  E-value=0.00027  Score=56.66  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+.+.||+|+|||||+++|++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999999773

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.05  E-value=0.00053  Score=56.36  Aligned_cols=34  Identities=32%  Similarity=0.561  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .-++++||+|+||||++..||..+   +..+..++..
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D  142 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAAD  142 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            348899999999999999999877   5666666554

>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=97.05  E-value=0.0003  Score=57.03  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=22.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.+.||+|+|||||+++|++.+..
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~~p   90 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGELEP   90 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            3889999999999999999998743

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=97.04  E-value=0.001  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+..
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            48999999999999999998753

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.04  E-value=0.0011  Score=50.43  Aligned_cols=24  Identities=33%  Similarity=0.535  Sum_probs=21.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..++++|++|+|||+|+..+.+..
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            459999999999999999999865

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.04  E-value=0.00071  Score=55.33  Aligned_cols=39  Identities=15%  Similarity=0.181  Sum_probs=30.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-+++.|+||+|||+|+..+|...   +.+++++++.
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            46555569999999999999999998765   4566666543

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=97.03  E-value=0.0011  Score=47.86  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>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=97.03  E-value=0.0004  Score=57.92  Aligned_cols=28  Identities=21%  Similarity=0.357  Sum_probs=24.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+.+.||+|+|||||++.|++.+....
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~~~~~  198 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVFNTTS  198 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTCEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            3488999999999999999999886543

>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=97.02  E-value=0.0004  Score=57.31  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.-+.|.||+|+||||+++.|++.+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3448899999999999999999987

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.02  E-value=0.0012  Score=50.35  Aligned_cols=32  Identities=13%  Similarity=0.176  Sum_probs=27.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +++|+++|.||||+|-++|-..   |..+..+++.
T Consensus        31 i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~   65 (196)
T 1g5t_A           31 IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFI   65 (196)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEee
Confidence            8899999999999998888777   8888888653

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=97.02  E-value=0.00093  Score=48.34  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+..
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            48999999999999999998754

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.01  E-value=0.0012  Score=47.63  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998643

>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=97.01  E-value=0.00049  Score=61.50  Aligned_cols=32  Identities=31%  Similarity=0.644  Sum_probs=28.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~   69 (204)
                      .-++|.|.||+||||+++.|++.+   |.+++.++
T Consensus        53 ~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           53 CTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            348899999999999999999999   88888875

>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=96.99  E-value=0.00049  Score=58.88  Aligned_cols=34  Identities=18%  Similarity=0.340  Sum_probs=27.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .-++++||+|+||||++..||..+   |..+..++..
T Consensus        98 ~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D  134 (433)
T 3kl4_A           98 FIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAAD  134 (433)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecC
Confidence            348899999999999999999877   6666665543

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.99  E-value=0.00075  Score=50.37  Aligned_cols=31  Identities=16%  Similarity=0.265  Sum_probs=25.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~   69 (204)
                      -+.|.|++|+||||++..|+..+   |..+..+.
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            47899999999999999999876   45555554

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.99  E-value=0.00042  Score=60.53  Aligned_cols=27  Identities=22%  Similarity=0.400  Sum_probs=23.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +..+++.||+|+||||+++++++.+..
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~  286 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPP  286 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCC
Confidence            445999999999999999999998854

>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=96.98  E-value=0.00056  Score=53.41  Aligned_cols=28  Identities=32%  Similarity=0.559  Sum_probs=24.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC--CceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN--FDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~--~~~~~   67 (204)
                      +.|.||||+||||+++.|++.++  ..++.
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~   58 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVKDYDVIM   58 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhcCCCcee
Confidence            77899999999999999999986  35543

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=96.98  E-value=0.0013  Score=47.39  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999863

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=96.97  E-value=0.0016  Score=48.87  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|+..+...
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999864

>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=96.96  E-value=0.0012  Score=49.30  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            48999999999999999998743

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=96.96  E-value=0.0017  Score=47.73  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        20 ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           20 KVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4999999999999999999864

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.96  E-value=0.00056  Score=51.26  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=21.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.|.|++|+||||+++.|.+.+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            448899999999999999999875

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=96.95  E-value=0.00052  Score=49.69  Aligned_cols=20  Identities=40%  Similarity=0.697  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||+|++.+.+
T Consensus         5 i~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            5 VLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            89999999999999999865

>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=96.95  E-value=0.00085  Score=55.11  Aligned_cols=38  Identities=18%  Similarity=0.095  Sum_probs=27.7

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~   71 (204)
                      |++.+ -++++||||+|||+|+-.++..+     +..+++++..
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E   67 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSE   67 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESS
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecc
Confidence            46655 48899999999999976665544     5567777654

>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=96.92  E-value=0.00092  Score=57.43  Aligned_cols=32  Identities=22%  Similarity=0.288  Sum_probs=25.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CC-ceEEeec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NF-DVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~-~~~~~~~   70 (204)
                      .+++.|+||||||+++.+++..+   +. .++.+..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~   82 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILAAP   82 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecC
Confidence            59999999999999999999887   33 4554443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.92  E-value=0.001  Score=57.17  Aligned_cols=39  Identities=18%  Similarity=0.252  Sum_probs=30.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~   71 (204)
                      |++.+.-+++.|+||+|||+|+..++..+    |.++++++..
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            45555558999999999999999988865    5567776643

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=96.92  E-value=0.00052  Score=51.76  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+.+.|++|+|||||++.+++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            48899999999999999999863

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=96.90  E-value=0.0018  Score=47.15  Aligned_cols=24  Identities=33%  Similarity=0.552  Sum_probs=21.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+++.|++|+|||+|++.+...-
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            349999999999999999998754

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=96.90  E-value=0.0011  Score=48.82  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+++.|++|+|||+|++.+.+..
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48999999999999999998643

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.89  E-value=0.00041  Score=58.61  Aligned_cols=24  Identities=42%  Similarity=0.606  Sum_probs=21.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.|.||+|+|||||+++|++...
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             EEEEECCCCChHHHHHHHHhCCCC
Confidence            388999999999999999999654

>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=96.89  E-value=0.0016  Score=48.27  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .-+++.|++|+|||+|++.+.+.
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            34999999999999999999865

>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=96.88  E-value=0.0005  Score=51.64  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+.+.|++|+|||||++.+++..
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            37899999999999999999864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.88  E-value=0.0021  Score=46.90  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         8 ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4899999999999999999864

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=96.87  E-value=0.0015  Score=47.82  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>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=96.84  E-value=0.0015  Score=55.99  Aligned_cols=36  Identities=22%  Similarity=0.415  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      +.-++++|++|+||||++..||..+   |..+..+++..
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~  138 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDT  138 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            3458899999999999999999877   66676666543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.83  E-value=0.00033  Score=52.33  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=22.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+.++|++|+||||+++.|++.+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3789999999999999999998843

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.83  E-value=0.0012  Score=56.46  Aligned_cols=39  Identities=13%  Similarity=0.094  Sum_probs=29.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~   71 (204)
                      |++.+.-++++|+||+|||+|+..+|...    |.+++++++.
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            45555558999999999999999888764    5567776653

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=96.82  E-value=0.00078  Score=52.49  Aligned_cols=29  Identities=17%  Similarity=0.219  Sum_probs=26.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.+.|++|||||++++.||+.+|.+++.
T Consensus        16 iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           16 IITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            47899999999999999999999988865

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.80  E-value=0.0017  Score=48.28  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+....
T Consensus        18 ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            48999999999999999998744

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.79  E-value=0.0034  Score=46.73  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4999999999999999999873

>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=96.79  E-value=0.0018  Score=48.17  Aligned_cols=22  Identities=18%  Similarity=0.307  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
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            4899999999999999999864

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=96.79  E-value=0.00086  Score=51.80  Aligned_cols=31  Identities=23%  Similarity=0.315  Sum_probs=27.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .+.|.|..||||||+++.++. +|.+++..|.
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~g~~vidaD~   41 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-RGASLVDTDL   41 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcEEECcH
Confidence            488999999999999999998 8998888664

>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=96.78  E-value=0.00085  Score=58.73  Aligned_cols=24  Identities=33%  Similarity=0.599  Sum_probs=22.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -++++|.||+||||+++.|++.++
T Consensus        37 lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           37 VIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            488999999999999999999884

>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=96.77  E-value=0.0021  Score=59.90  Aligned_cols=23  Identities=30%  Similarity=0.379  Sum_probs=19.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .-++|.||+|+||||+++.++..
T Consensus       674 ~i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          674 RVMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             CEEEEESCCCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCchHHHHHHHHHH
Confidence            34889999999999999998753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.76  E-value=0.00075  Score=58.19  Aligned_cols=27  Identities=26%  Similarity=0.299  Sum_probs=23.1

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+.-+.+.||+|+|||||++.|++.+
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            333448999999999999999999987

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=96.76  E-value=0.00079  Score=57.43  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|+||+|+|||||+++|++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTSC
T ss_pred             EEEECCCCCCHHHHHHHHhCcc
Confidence            7899999999999999999863

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=96.76  E-value=0.0029  Score=47.49  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+...
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            34999999999999999999864

>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=96.76  E-value=0.00098  Score=49.62  Aligned_cols=23  Identities=17%  Similarity=0.301  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+..
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            49999999999999999987654

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=96.76  E-value=0.0023  Score=48.51  Aligned_cols=24  Identities=17%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+++.|++|+|||+|+..+....
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            349999999999999999998643

>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=96.76  E-value=0.0017  Score=55.46  Aligned_cols=35  Identities=23%  Similarity=0.388  Sum_probs=27.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +..++++|++|+||||++..||..+   +..+..++..
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D  135 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD  135 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeecc
Confidence            3457889999999999999999887   5566665543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=96.75  E-value=0.0018  Score=48.56  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+++.|++|+|||+|++.+...-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            348999999999999999998643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.75  E-value=0.00059  Score=60.14  Aligned_cols=35  Identities=31%  Similarity=0.318  Sum_probs=27.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC----CceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN----FDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~----~~~~~~~~~   71 (204)
                      +..+.|.|++|+||||++++|++.++    ..+..++..
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD  407 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGD  407 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCc
Confidence            34488999999999999999999985    235445543

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.74  E-value=0.0016  Score=53.94  Aligned_cols=38  Identities=24%  Similarity=0.200  Sum_probs=29.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      |+..+.-+++.|+||+|||+|+..+|..+   +.++.++++
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            45555558999999999999999998875   667766654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=96.73  E-value=0.011  Score=55.99  Aligned_cols=34  Identities=21%  Similarity=0.405  Sum_probs=25.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh------cCCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY------LNFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~------~~~~~~~~~~~   71 (204)
                      +-+.++|+.|+|||+||+.+++.      ++..++.++.+
T Consensus       151 RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs  190 (1221)
T 1vt4_I          151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK  190 (1221)
T ss_dssp             CEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECC
T ss_pred             eEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeC
Confidence            45889999999999999999853      24445555544

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.73  E-value=0.00077  Score=49.19  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+.+.|+||+|||||++.+++.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3889999999999999999874

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=96.72  E-value=0.0019  Score=48.23  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            49999999999999999998643

>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=96.72  E-value=0.00094  Score=48.58  Aligned_cols=22  Identities=41%  Similarity=0.582  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++||+|+|||+++.+|.-.+
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            6899999999999999998766

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.71  E-value=0.00081  Score=57.17  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|.||||+|||||+++|++..
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            7899999999999999999955

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.69  E-value=0.0017  Score=48.41  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
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            38999999999999999998755

>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=96.69  E-value=0.0012  Score=58.35  Aligned_cols=33  Identities=30%  Similarity=0.266  Sum_probs=28.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC----CceEEeecC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN----FDVYDLELT   71 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~----~~~~~~~~~   71 (204)
                      -++|.|+||+||||++++|++.++    .+++.++..
T Consensus       398 ~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D  434 (573)
T 1m8p_A          398 TIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGD  434 (573)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHH
T ss_pred             EEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcH
Confidence            478999999999999999999986    677777644

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=96.69  E-value=0.002  Score=47.74  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus        17 ~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           17 KILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            49999999999999999998753

>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=96.68  E-value=0.0026  Score=59.31  Aligned_cols=21  Identities=29%  Similarity=0.293  Sum_probs=18.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -++|.||+|+||||+++.++.
T Consensus       664 i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          664 FHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999943

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=96.67  E-value=0.00071  Score=50.31  Aligned_cols=21  Identities=24%  Similarity=0.596  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.+.|++|+|||||++.+++.
T Consensus         5 v~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            5 LMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            889999999999999999873

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.67  E-value=0.0011  Score=58.17  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.-+.|.||+|+|||||+++|++.+.
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~Gl~~   72 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAGQLI   72 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            33488999999999999999999764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.66  E-value=0.0033  Score=46.95  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+...
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            45999999999999999999875

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.66  E-value=0.00087  Score=49.93  Aligned_cols=25  Identities=32%  Similarity=0.534  Sum_probs=21.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...++++|++|+|||+|+..+.+..
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            3459999999999999999998854

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.64  E-value=0.0011  Score=47.49  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+|||++++.+.+..
T Consensus         4 i~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            4 VVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.63  E-value=0.0026  Score=47.53  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
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            3899999999999999998753

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=96.63  E-value=0.0027  Score=47.08  Aligned_cols=23  Identities=17%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      ...+++.|++|+|||+|++.+.+
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            34599999999999999999985

>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=96.63  E-value=0.024  Score=46.34  Aligned_cols=62  Identities=11%  Similarity=0.146  Sum_probs=41.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CC-ceEEeecCCccChHHHHHHHHhc------CCCeEEEEecCCc-cc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NF-DVYDLELTTFKENMELRNMLIAT------KNKSILVVGDIDY-LT  101 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~-~~~~~~~~~~~~~~~~~~~~~~~------~~~~il~iDeid~-~~  101 (204)
                      ...++||||+|.||++.++.+++.+   +. +...+....   ..++++++...      ....+++|||++. ++
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~   90 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP---NTDWNAIFSLCQAMSLFASRQTLLLLLPENGPN   90 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT---TCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC---CCCHHHHHHHhcCcCCccCCeEEEEECCCCCCC
Confidence            4569999999999999999998876   32 222222222   23344443332      4678999999998 73

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.60  E-value=0.0054  Score=50.81  Aligned_cols=23  Identities=43%  Similarity=0.681  Sum_probs=20.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+.|.|+||+|||||++++++.+
T Consensus        76 ~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           76 RVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            38899999999999999999864

>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=96.60  E-value=0.0019  Score=56.50  Aligned_cols=38  Identities=18%  Similarity=0.186  Sum_probs=28.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      +++.+.-+++.||||+|||||++.++...   |..++.+..
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~  317 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAY  317 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            45555568999999999999999999865   334444443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.60  E-value=0.0011  Score=48.98  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+.+.|++|+|||||++.+++.
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999874

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.60  E-value=0.002  Score=55.24  Aligned_cols=39  Identities=15%  Similarity=0.181  Sum_probs=30.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-+++.|+||+|||+|+..+|...   |.++..+++-
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlE  234 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  234 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECC
Confidence            45555559999999999999998888766   6677776553

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=96.59  E-value=0.0013  Score=47.37  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4899999999999999999874

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.58  E-value=0.00061  Score=53.99  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.|.|++|+||||+++.|++.++
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            378999999999999999999983

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=96.58  E-value=0.0042  Score=46.82  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
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            4899999999999999999764

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=96.57  E-value=0.0021  Score=49.62  Aligned_cols=29  Identities=31%  Similarity=0.363  Sum_probs=24.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~   68 (204)
                      +.|.|++|+||||+++.|+..+   |.+++..
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~   40 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRERGIEVQLT   40 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCcccc
Confidence            7788999999999999999988   3455443

>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=96.57  E-value=0.0043  Score=51.20  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.+.|+||+||||++..++..+
T Consensus        57 ~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           57 LRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHH
Confidence            348899999999999999999765

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.57  E-value=0.002  Score=53.43  Aligned_cols=32  Identities=34%  Similarity=0.392  Sum_probs=25.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      -+.|.|+||+||||++..++..+   |..+..++.
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            48899999999999999999876   555555443

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.56  E-value=0.0016  Score=50.62  Aligned_cols=27  Identities=22%  Similarity=0.468  Sum_probs=22.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.|.|++|+||||+++.|++. +..+..
T Consensus        23 i~i~G~~GsGKSTl~~~L~~~-~g~v~~   49 (230)
T 2vp4_A           23 VLIEGNIGSGKTTYLNHFEKY-KNDICL   49 (230)
T ss_dssp             EEEECSTTSCHHHHHHTTGGG-TTTEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhc-cCCeEE
Confidence            789999999999999999997 444433

>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=96.56  E-value=0.00051  Score=52.00  Aligned_cols=28  Identities=25%  Similarity=0.217  Sum_probs=21.8

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +..+.-+.+.|++|+|||||++.+++..
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3333448999999999999999988654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=96.56  E-value=0.0012  Score=48.13  Aligned_cols=22  Identities=36%  Similarity=0.607  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            4899999999999999999764

>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=96.56  E-value=0.0023  Score=57.18  Aligned_cols=23  Identities=39%  Similarity=0.625  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.||||||||+++..++..+
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999877776654

>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=96.55  E-value=0.0014  Score=58.06  Aligned_cols=30  Identities=27%  Similarity=0.514  Sum_probs=24.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.+.||+|+||||+++.+++.+...--.+
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~~p~~G~i  400 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFYDIDEGHI  400 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhhccCCCCCeE
Confidence            388999999999999999999876554333

>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=96.53  E-value=0.003  Score=52.96  Aligned_cols=35  Identities=17%  Similarity=0.193  Sum_probs=28.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ..++++.||+|+|||++++.++..+   +..++.+|..
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            4569999999999999999998765   6677777764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.52  E-value=0.0011  Score=53.83  Aligned_cols=27  Identities=37%  Similarity=0.459  Sum_probs=22.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.|.||||+|||||+++|++......
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~~~~  197 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLKLRV  197 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-
T ss_pred             eEEEECCCCCcHHHHHHHhcccccccc
Confidence            378999999999999999999775443

>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=96.52  E-value=0.0014  Score=57.95  Aligned_cols=37  Identities=24%  Similarity=0.395  Sum_probs=27.5

Q ss_pred             HHHHhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           28 FYRNVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        28 ~~~~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .++++.+..+.|  +.++||+|+||||+++.+++.+.+.
T Consensus       358 ~l~~i~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~  396 (582)
T 3b5x_A          358 ALSHVSFSIPQGKTVALVGRSGSGKSTIANLFTRFYDVD  396 (582)
T ss_pred             ccccceEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            344444433344  8899999999999999999987543

>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=96.52  E-value=0.002  Score=48.56  Aligned_cols=31  Identities=19%  Similarity=0.344  Sum_probs=23.3

Q ss_pred             HHHhCCCCCc-eeEEECCCCCcHHHHHHHHHH
Q 041769           29 YRNVGKAWKH-SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        29 ~~~~~~~~~~-g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +..+++..+. .+++.|++|+|||+|++.+.+
T Consensus        16 l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           16 LQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHhhccCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            4444443333 489999999999999999875

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.52  E-value=0.0015  Score=51.01  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=22.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.|.|++|+||||+++.|++.++
T Consensus         4 ~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            4 RLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999999984

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=96.51  E-value=0.0015  Score=47.65  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>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=96.51  E-value=0.002  Score=56.27  Aligned_cols=35  Identities=14%  Similarity=-0.016  Sum_probs=28.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC-----ceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF-----DVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~-----~~~~~~~~~   72 (204)
                      ..+.|.|.+|+||||++++||+.++.     ++..++...
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            34889999999999999999999985     344555543

>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=96.51  E-value=0.0012  Score=57.69  Aligned_cols=37  Identities=16%  Similarity=0.181  Sum_probs=26.1

Q ss_pred             CCCceeEEECCCCCcHHHHHHH--HHHhc--CCceEEeecC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAA--MTNYL--NFDVYDLELT   71 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~--la~~~--~~~~~~~~~~   71 (204)
                      +.+.-++|.||||+|||||++.  +++..  +...+.++..
T Consensus        37 ~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~   77 (525)
T 1tf7_A           37 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFE   77 (525)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            4445589999999999999999  45554  3344555443

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=96.51  E-value=0.0016  Score=47.17  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4899999999999999999865

>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=96.50  E-value=0.0017  Score=56.24  Aligned_cols=26  Identities=31%  Similarity=0.275  Sum_probs=22.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ..+.|.||+|+|||||+++|++.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~p   55 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALIP   55 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCCC
Confidence            45789999999999999999998743

>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=96.50  E-value=0.00082  Score=54.65  Aligned_cols=21  Identities=33%  Similarity=0.510  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.||+|+|||||++.|+..
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999998764

>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=96.50  E-value=0.0031  Score=51.04  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=26.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      ..+.++|++|+||||++..+|..+   +..+..++.
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            347788999999999999999887   455655554

>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=96.49  E-value=0.003  Score=47.27  Aligned_cols=22  Identities=14%  Similarity=0.333  Sum_probs=19.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHH
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      ..+++.|++|+|||+|+..+..
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCS
T ss_pred             cEEEEECCCCCCHHHHHHHHHh
Confidence            4599999999999999999864

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=96.49  E-value=0.0015  Score=47.27  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4899999999999999999864

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=96.48  E-value=0.0013  Score=48.39  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=20.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+.+.|+||+|||||++.+++.
T Consensus         6 ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            6 KVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999975

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.48  E-value=0.0012  Score=55.11  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=21.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.|.||||+|||||+++|++...
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            488999999999999999998765

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=96.47  E-value=0.0015  Score=47.37  Aligned_cols=20  Identities=35%  Similarity=0.587  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||+|++.+.+
T Consensus         5 i~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            88999999999999999975

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=96.46  E-value=0.0017  Score=47.46  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+++.|++|+|||+|++.+.+..
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            348999999999999999988743

>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=96.46  E-value=0.00088  Score=57.77  Aligned_cols=25  Identities=32%  Similarity=0.557  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-++++|.||+||||+++.|++.++
T Consensus        40 ~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           40 TLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3489999999999999999999874

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.45  E-value=0.002  Score=50.27  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=17.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|.|++|+||||+++.|++.+
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7788999999999999999988

>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=96.43  E-value=0.0045  Score=46.31  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+..
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            49999999999999999887754

>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=96.42  E-value=0.0018  Score=52.68  Aligned_cols=24  Identities=38%  Similarity=0.603  Sum_probs=21.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.|.||||+|||||+++|+ ....
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~~~  190 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GEEL  190 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SCCC
T ss_pred             EEEEECCCCCCHHHHHHHHH-HhhC
Confidence            47899999999999999999 6644

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=96.41  E-value=0.0019  Score=47.67  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+...
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34899999999999999999864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.41  E-value=0.0017  Score=57.71  Aligned_cols=31  Identities=23%  Similarity=0.567  Sum_probs=25.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.+.||+|+||||+++.+++.+...--.+
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i  412 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRFYDVDRGQI  412 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCcCCCCeEE
Confidence            3488999999999999999999886654333

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=96.41  E-value=0.0079  Score=48.08  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+.|.|+||+|||||.+++.+.
T Consensus         5 kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            5 EIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3889999999999999999974

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.41  E-value=0.0023  Score=46.70  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+.+.
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45999999999999999999763

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=96.41  E-value=0.00071  Score=52.89  Aligned_cols=24  Identities=38%  Similarity=0.364  Sum_probs=21.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.++||+|+||||++++|+..+..
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~~   53 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALIP   53 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhccccc
Confidence            567899999999999999998854

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.40  E-value=0.0046  Score=47.08  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      ..+.+.|++|+||||++..++..+.
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            3488999999999999999998763

>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=96.39  E-value=0.0018  Score=57.77  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-+.|.||+|+|||||+++|++.+.
T Consensus       118 e~~~LiG~NGsGKSTLlkiL~Gll~  142 (607)
T 3bk7_A          118 MVVGIVGPNGTGKTTAVKILAGQLI  142 (607)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhCCCC
Confidence            3488999999999999999999764

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=96.39  E-value=0.0028  Score=49.12  Aligned_cols=28  Identities=18%  Similarity=0.169  Sum_probs=24.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      -+.|.|++|+||||.++.|+..++..+.
T Consensus         7 ~i~~eG~~g~GKst~~~~l~~~l~~~~~   34 (216)
T 3tmk_A            7 LILIEGLDRTGKTTQCNILYKKLQPNCK   34 (216)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHCSSEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcccce
Confidence            3788999999999999999999987443

>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=96.39  E-value=0.0019  Score=49.30  Aligned_cols=24  Identities=38%  Similarity=0.564  Sum_probs=21.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+++||+|+|||+++.+|.-.++.
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            689999999999999999887754

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=96.39  E-value=0.0026  Score=52.02  Aligned_cols=28  Identities=18%  Similarity=0.279  Sum_probs=23.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      +.|++|.|++|+|||+++..+.+. |..+
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~l  171 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHRL  171 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCce
Confidence            568999999999999999999885 4433

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.38  E-value=0.002  Score=47.86  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|+..+.+.
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            34899999999999999999886

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.37  E-value=0.0022  Score=57.14  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.|.||+|+|||||++.|++.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll~P  129 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQKP  129 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCC
Confidence            3889999999999999999997743

>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=96.37  E-value=0.0027  Score=55.09  Aligned_cols=39  Identities=13%  Similarity=-0.022  Sum_probs=29.8

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~   71 (204)
                      |++.+.-+++.|+||+|||+|+..+|...    |.++..+++.
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E  280 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLE  280 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESS
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEecc
Confidence            45555558999999999999999888765    4567776653

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=96.36  E-value=0.0028  Score=45.81  Aligned_cols=23  Identities=17%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|+..+...
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            45999999999999999999763

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.35  E-value=0.0013  Score=58.18  Aligned_cols=31  Identities=23%  Similarity=0.381  Sum_probs=25.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      -+.++||+|+||||+++.+++.+...--.+.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~~p~~G~i~  399 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFYDVTSGQIL  399 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCCSEEEEE
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCcEEE
Confidence            3889999999999999999998866544433

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=96.35  E-value=0.002  Score=47.00  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=96.35  E-value=0.0066  Score=48.03  Aligned_cols=22  Identities=41%  Similarity=0.650  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+.|.|+||+|||||..++.+.
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3889999999999999999876

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=96.34  E-value=0.002  Score=47.09  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=20.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus        11 ~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999875

>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=96.34  E-value=0.0022  Score=47.51  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|+..+....
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            48999999999999999998753

>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=96.33  E-value=0.0031  Score=51.21  Aligned_cols=34  Identities=24%  Similarity=0.369  Sum_probs=27.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      -+++.|++|+||||++..+|..+   +..+..++...
T Consensus       100 vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~  136 (297)
T 1j8m_F          100 VIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADV  136 (297)
T ss_dssp             EEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence            47789999999999999999877   66777766653

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=96.32  E-value=0.0021  Score=47.61  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         9 ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999875

>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=96.31  E-value=0.0018  Score=48.16  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|+..+.+.
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            34999999999999999999864

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=96.30  E-value=0.0042  Score=48.68  Aligned_cols=31  Identities=32%  Similarity=0.633  Sum_probs=25.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc--CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL--NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~--~~~~~~~~~   70 (204)
                      +++.|.+|+||||++..++..+  |..+..++.
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~   49 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNL   49 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEEC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeC
Confidence            7889999999999999999766  666666654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.29  E-value=0.002  Score=56.55  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.+.||+|+|||||+++|++...
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999999774

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.29  E-value=0.0022  Score=46.82  Aligned_cols=22  Identities=32%  Similarity=0.596  Sum_probs=19.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998753

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=96.29  E-value=0.0022  Score=47.23  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+.-
T Consensus        12 ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           12 KFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999998643

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.29  E-value=0.0047  Score=53.78  Aligned_cols=34  Identities=15%  Similarity=0.332  Sum_probs=27.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ..++|+|+||+||||++..||..+   |..+..++..
T Consensus       102 ~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D  138 (504)
T 2j37_W          102 NVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD  138 (504)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEecc
Confidence            348899999999999999999776   6677666653

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=96.28  E-value=0.0018  Score=47.78  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=19.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+.+.
T Consensus         4 i~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            4 IIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            889999999999999999874

>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=96.27  E-value=0.0041  Score=57.16  Aligned_cols=23  Identities=39%  Similarity=0.625  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+++.||||||||+++..++..+
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            37899999999999877776654

>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=96.27  E-value=0.0021  Score=57.30  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -+.+.||+|+|||||+++|++.+.
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999999999764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.27  E-value=0.0022  Score=56.34  Aligned_cols=24  Identities=17%  Similarity=0.304  Sum_probs=21.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.|.||+|+|||||+++|++.+..
T Consensus        28 ~gLiGpNGaGKSTLlkiL~Gl~~p   51 (538)
T 3ozx_A           28 LGVLGKNGVGKTTVLKILAGEIIP   51 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCCC
Confidence            779999999999999999997743

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=96.26  E-value=0.0026  Score=46.46  Aligned_cols=23  Identities=26%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            48999999999999999998643

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.25  E-value=0.0024  Score=53.35  Aligned_cols=22  Identities=45%  Similarity=0.638  Sum_probs=19.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++++||+|+||||+..+|+..+
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            6799999999999999998665

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=96.25  E-value=0.0027  Score=46.68  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        20 ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           20 KLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999865

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.24  E-value=0.0019  Score=56.81  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.|.||+|+|||||+++|++....
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~~p  320 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEITA  320 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            3789999999999999999997743

>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=96.24  E-value=0.0024  Score=47.74  Aligned_cols=21  Identities=24%  Similarity=0.532  Sum_probs=19.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      .+++.|++|+|||+|++.+.+
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            489999999999999999987

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=96.24  E-value=0.0027  Score=46.57  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>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=96.23  E-value=0.0024  Score=49.66  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -++|.|++|+|||||++++.+..
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            48999999999999999998754

>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=96.23  E-value=0.0024  Score=50.18  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=21.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+.|.|++|+||||+++.|+..+
T Consensus        29 ~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           29 FIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             EEEEEESTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37889999999999999999988

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=96.22  E-value=0.0028  Score=47.03  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+...-
T Consensus        24 ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           24 KLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999998753

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.22  E-value=0.0055  Score=52.37  Aligned_cols=36  Identities=17%  Similarity=0.327  Sum_probs=29.1

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~   72 (204)
                      +..++++|++|+||||++-.||..+    |..+..+++..
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            3458899999999999999888766    67777777664

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.21  E-value=0.0049  Score=54.91  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.++||+|+||||++++|++..
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            8899999999999999999975

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=96.20  E-value=0.0023  Score=47.41  Aligned_cols=23  Identities=35%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+++.|++|+|||+|++.+.+.-
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           25 EVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCc
Confidence            49999999999999999998753

>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=96.19  E-value=0.0029  Score=47.02  Aligned_cols=22  Identities=23%  Similarity=0.223  Sum_probs=19.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|++|+|||+|++.+...
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3999999999999999877764

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=96.19  E-value=0.0029  Score=47.48  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..+++.|++|+|||+|++.+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            348999999999999999998754

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=96.18  E-value=0.0085  Score=46.16  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -++|.|.+|+|||+|+..+...
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3899999999999999988753

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=96.18  E-value=0.0023  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.535  Sum_probs=20.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+.|.|+||+|||||++++.+..
T Consensus         5 ~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            5 TVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998753

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.18  E-value=0.0023  Score=56.77  Aligned_cols=29  Identities=21%  Similarity=0.342  Sum_probs=24.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.++||+|+||||+++.+++.+...--.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~~~~~G~  399 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLIDPERGR  399 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSSCCSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCccCCCcE
Confidence            38899999999999999999987654433

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.17  E-value=0.0031  Score=46.14  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34999999999999999999864

>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=96.16  E-value=0.0042  Score=52.81  Aligned_cols=27  Identities=30%  Similarity=0.513  Sum_probs=23.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-..|+||+|+|||+++.+|+..++..
T Consensus        27 ~~~~i~G~nG~GKstll~ai~~~~~~~   53 (430)
T 1w1w_A           27 NFTSIIGPNGSGKSNMMDAISFVLGVR   53 (430)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHTTC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhhccc
Confidence            447899999999999999999988653

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=96.16  E-value=0.0023  Score=46.85  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=20.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus         9 ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.16  E-value=0.0061  Score=46.56  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .-+.+.|.+|+||||++..++...
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            448899999999999999999875

>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=96.16  E-value=0.0027  Score=51.88  Aligned_cols=29  Identities=28%  Similarity=0.271  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      +.|++|.|+||+|||++|..+.. -|..++
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            46799999999999999988876 344443

>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=96.15  E-value=0.00088  Score=54.74  Aligned_cols=26  Identities=35%  Similarity=0.557  Sum_probs=20.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-+.|.||||+|||||+++|+.....
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~~~  199 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPELGL  199 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC----
T ss_pred             CEEEEECCCCCCHHHHHHHhcccccc
Confidence            44889999999999999999986643

>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=96.15  E-value=0.0032  Score=46.87  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|++|+|||+|++.+...
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            3999999999999999988764

>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=96.14  E-value=0.0033  Score=46.86  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+.-
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            49999999999999999998753

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=96.13  E-value=0.0033  Score=46.65  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4999999999999999999754

>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=96.13  E-value=0.0022  Score=54.58  Aligned_cols=22  Identities=32%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|.||+|+|||||++.+++..
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            7899999999999999999764

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=96.13  E-value=0.0034  Score=46.73  Aligned_cols=22  Identities=36%  Similarity=0.652  Sum_probs=19.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+|||+|++.+...-
T Consensus        24 i~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           24 YIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998643

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=96.12  E-value=0.003  Score=47.57  Aligned_cols=22  Identities=32%  Similarity=0.572  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|+..+.+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999864

>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=96.11  E-value=0.0033  Score=53.01  Aligned_cols=23  Identities=22%  Similarity=0.517  Sum_probs=20.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -++++||||+|||++++.|++..
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            39999999999999999998864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=96.11  E-value=0.0031  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      .+++.|++|+|||+|++.+..
T Consensus         8 ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            8 KIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHc
Confidence            489999999999999999985

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.10  E-value=0.0034  Score=48.88  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.|.|++|+||||+++.|++.++.
T Consensus        24 i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           24 ITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            778899999999999999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.09  E-value=0.0031  Score=47.36  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+++.|++|+|||+|++.+.+.-
T Consensus        26 ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           26 KVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            49999999999999999998754

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.07  E-value=0.0036  Score=47.16  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|+..+...
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            45999999999999999999864

>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=96.06  E-value=0.0028  Score=46.82  Aligned_cols=24  Identities=13%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHh
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ...+++.|++|+|||+|++.+.+.
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            345999999999999999999864

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=96.06  E-value=0.0031  Score=48.14  Aligned_cols=23  Identities=30%  Similarity=0.557  Sum_probs=19.3

Q ss_pred             eeEEECCCCCcHHHHHHH-HHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAA-MTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~-la~~~   61 (204)
                      .+++.|++|+|||+|++. +.+..
T Consensus        17 ki~v~G~~~~GKSsli~~~~~~~~   40 (221)
T 3gj0_A           17 KLVLVGDGGTGKTTFVKRHLTGEF   40 (221)
T ss_dssp             EEEEEECTTSSHHHHHTTBHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            499999999999999998 55443

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.06  E-value=0.0032  Score=48.58  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=20.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|.|++|+||||.++.|+..+
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7789999999999999999988

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=96.05  E-value=0.0038  Score=46.81  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=19.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|+||+|||+|+..+.+.
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999999863

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=96.03  E-value=0.0015  Score=55.11  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=22.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.|+||+|+|||+++++|+..++.
T Consensus        62 ~~~lvG~NGaGKStLl~aI~~l~~~   86 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALGLLLGG   86 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHHHHTTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3789999999999999999888764

>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=96.02  E-value=0.0037  Score=55.67  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=19.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +-+++.|+||||||+++..+...+
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            448999999999999888776554

>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=96.02  E-value=0.0035  Score=47.60  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=20.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
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            4999999999999999999875

>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=96.02  E-value=0.0042  Score=45.57  Aligned_cols=23  Identities=17%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      ...+++.|++|+|||+|+..+..
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            34599999999999999988874

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.01  E-value=0.0027  Score=51.89  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+||||+++.+.+..
T Consensus         7 ~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            7 TLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEecCCCCHHHHHHHHHhhc
Confidence            7899999999999999999864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0045  Score=55.17  Aligned_cols=23  Identities=35%  Similarity=0.618  Sum_probs=21.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.+.||+|+|||||+++|++...
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            78999999999999999999773

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.00  E-value=0.0055  Score=53.91  Aligned_cols=33  Identities=27%  Similarity=0.359  Sum_probs=26.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC---CceEEeecC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELT   71 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~   71 (204)
                      -++|.|++|+||||+++.|++.++   .++..++..
T Consensus       374 ~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D  409 (546)
T 2gks_A          374 CVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGD  409 (546)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHH
T ss_pred             EEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECch
Confidence            478999999999999999999874   456665543

>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=95.99  E-value=0.0037  Score=47.36  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+...
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4899999999999999998864

>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=95.98  E-value=0.007  Score=50.50  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.++|+||+|||||++++++..
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            7899999999999999998753

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=95.97  E-value=0.0059  Score=56.14  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=17.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.||||||||+++..+...
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~~  398 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVYH  398 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999987666543

>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=95.95  E-value=0.0061  Score=51.72  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=28.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      .++++.|++|+|||++++.+...+   |.+++.+|...
T Consensus        54 ~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dpkg   91 (437)
T 1e9r_A           54 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNG   91 (437)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            469999999999999987776654   77888888754

>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=95.94  E-value=0.0039  Score=51.98  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ..|+||+|+|||+++.+|+...
T Consensus        29 ~~i~G~nG~GKttll~ai~~~~   50 (359)
T 2o5v_A           29 TGIYGENGAGKTNLLEAAYLAL   50 (359)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHhc
Confidence            6799999999999999998744

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=95.92  E-value=0.0033  Score=46.38  Aligned_cols=22  Identities=14%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+++.|++|+|||+|++.+.+.
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            4999999999999999999864

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=95.92  E-value=0.0024  Score=46.95  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=9.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            34899999999999999998754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.92  E-value=0.004  Score=46.59  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+++.|++|+|||+|++.+.+.
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            34999999999999999998854

>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=95.91  E-value=0.0043  Score=51.09  Aligned_cols=22  Identities=41%  Similarity=0.582  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .+|+||+|+|||+++.||...+
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            6799999999999999987655

>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=95.90  E-value=0.0034  Score=47.15  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=18.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -+++.|++|+|||+|++.+.+
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            489999999999999999864

>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=95.90  E-value=0.014  Score=51.22  Aligned_cols=44  Identities=18%  Similarity=0.269  Sum_probs=30.4

Q ss_pred             cCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHH
Q 041769            6 AMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus         6 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +|.+..++++.+.+...          +-...+.+.++|+.|+|||+||+.+++
T Consensus       131 ~GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            36666666665555321          111234588999999999999999996

---

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	204
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	3e-08
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	4e-08
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	7e-07
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	1e-06
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	5e-06
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	3e-05
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	5e-05
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	2e-04
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	3e-04
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	8e-04
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	0.001
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	0.004

>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 = 50.2 bits (119), Expect = 3e-08
 Identities = 25/161 (15%), Positives = 58/161 (36%), Gaps = 26/161 (16%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           T++ +    ++K+ + + ++  V+  + +   G         YGPPG GK+ L  A+ N 
Sbjct: 5   TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE 64

Query: 61  LNFDVYDLELTTF------KENMELRNMLIATKN--KSILVVGDIDYLTLHILLRSSCMD 112
              +   ++          +    +R +    +     +L   ++D         S    
Sbjct: 65  CQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELD---------SIAKA 115

Query: 113 MHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANV 153
              ++        +++           +LTE+D +  K NV
Sbjct: 116 RGGNIGDGGGAADRVINQ---------ILTEMDGMSTKKNV 147

>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 = 50.0 bits (118), Expect = 4e-08
 Identities = 20/103 (19%), Positives = 38/103 (36%), Gaps = 7/103 (6%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
            +D +         I + +E  ++    ++ +G        LYGPPGTGK+ +  A+ N 
Sbjct: 2   GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 61

Query: 61  LNFDVYDLELTTF-------KENMELRNMLIATKNKSILVVGD 96
                + +             E+   +    A KN   ++  D
Sbjct: 62  TGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFID 104

>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 = 46.0 bits (109), Expect = 7e-07
 Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 9/108 (8%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF  +A     K+ + + +E +++    ++ +G        + GPPGTGK+ L  A+   
Sbjct: 10  TFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 61  LNFDVYDLELTTFKE------NMELRNM--LIATKNKSILVVGDIDYL 100
                + +  + F E         +R+M          I+ + +ID +
Sbjct: 69  AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAV 116

>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 = 45.6 bits (108), Expect = 1e-06
 Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 9/108 (8%)

Query: 1   TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNY 60
           TF  +A     K+ + + +E F+K    +  +G        L GPPG GK+ L  A+   
Sbjct: 7   TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 65

Query: 61  LNFDVYDLELTTFKENM------ELRNML-IATKNK-SILVVGDIDYL 100
                     + F E         +R++   A ++   I+ + +ID +
Sbjct: 66  ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAV 113

>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 = 43.5 bits (102), Expect = 5e-06
 Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 12/89 (13%)

Query: 10  NMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE 69
            M  ++ D L+  V             K  +   GP  +GK++L AA+         ++ 
Sbjct: 135 KMDSVVYDFLKCMVY--------NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVN 186

Query: 70  LTTFKENMELRNMLIATKNKSILVVGDID 98
           L   + N EL   +    ++ ++V  D+ 
Sbjct: 187 LPLDRLNFELGVAI----DQFLVVFEDVK 211

>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 = 41.6 bits (96), Expect = 3e-05
 Identities = 25/154 (16%), Positives = 53/154 (34%), Gaps = 6/154 (3%)

Query: 17  DDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN 76
           D+ + F  R++    +         + G   TGKSS+I    N LN     L+L  F+E 
Sbjct: 9   DNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEER 68

Query: 77  ME------LRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHMSYCTPFRFKMLAS 130
                   L  +          +   +  L     +     ++  + +      F  L  
Sbjct: 69  NYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLE 128

Query: 131 NYFGITEHPLLTEIDELIEKANVTLADVVEQLMR 164
           ++   ++  ++  +DE  E   +   +++  L  
Sbjct: 129 SFEQASKDNVIIVLDEAQELVKLRGVNLLPALAY 162

>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 = 40.5 bits (93), Expect = 5e-05
 Identities = 14/87 (16%), Positives = 30/87 (34%), Gaps = 4/87 (4%)

Query: 1  TFDTLAMDSNMKQMIMDDLERFVKRKE----FYRNVGKAWKHSYFLYGPPGTGKSSLIAA 56
              +  +      + + L  +   K+         G     +  LYGPPG GK++    
Sbjct: 12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL 71

Query: 57 MTNYLNFDVYDLELTTFKENMELRNML 83
          +   L +D+ +   +  +    L   +
Sbjct: 72 VAQELGYDILEQNASDVRSKTLLNAGV 98

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

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]

 Score = 39.0 bits (89), Expect = 2e-04
 Identities = 14/97 (14%), Positives = 28/97 (28%)

Query: 38  HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDI 97
               LYGP GTGK +   A+   +            ++ +   N  +     S     +I
Sbjct: 34  PHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEI 93

Query: 98  DYLTLHILLRSSCMDMHIHMSYCTPFRFKMLASNYFG 134
               +    R    ++   ++      F+        
Sbjct: 94  TPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAH 130

>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 = 38.4 bits (88), Expect = 3e-04
 Identities = 17/144 (11%), Positives = 43/144 (29%), Gaps = 20/144 (13%)

Query: 15  IMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTN--------------- 59
           ++DD E  V   +  +N  +    S  L GPP +GK++L A +                 
Sbjct: 21  VLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKM 77

Query: 60  --YLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYLTLHILLRSSCMDMHIHM 117
             +            F +  + +   +   +   L+           L+  + + +    
Sbjct: 78  IGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKA 137

Query: 118 SYCTPFRFKMLASNYFGITEHPLL 141
                    +  ++   + +   +
Sbjct: 138 PPQGRKLLIIGTTSRKDVLQEMEM 161

>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 = 37.3 bits (85), Expect = 8e-04
 Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 5/68 (7%)

Query: 8  DSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD 67
          D   +  + D+LE  ++ K+           ++ L G PG+GK+SL +A+      +V  
Sbjct: 8  DKQFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIV 62

Query: 68 LELTTFKE 75
          ++  TFK+
Sbjct: 63 IDNDTFKQ 70

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

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]

 Score = 36.5 bits (83), Expect = 0.001
 Identities = 13/64 (20%), Positives = 29/64 (45%)

Query: 38  HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDI 97
               L GPPG GK++L   + + L  +++        +  ++  +L + +   +L + +I
Sbjct: 36  DHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 95

Query: 98  DYLT 101
             L 
Sbjct: 96  HRLN 99

>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 = 35.1 bits (79), Expect = 0.004
 Identities = 8/47 (17%), Positives = 14/47 (29%)

Query: 16 MDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN 62
           + L R    +             Y   G  G GK++L       ++
Sbjct: 25 AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS 71

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	204
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.96
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.95
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.95
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.95
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.81
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.75
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.73
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.72
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.68
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.61
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.57
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.57
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.52
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.51
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.47
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.47
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.44
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.4
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.38
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.3
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.27
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.25
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.24
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.24
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.23
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.07
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.95
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.93
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.91
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.89
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.54
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.52
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.5
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.49
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.45
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.42
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.37
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.36
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.36
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.33
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	98.3
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	98.3
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.28
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.25
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.21
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	98.19
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.18
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	98.15
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	98.14
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.14
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	98.11
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	98.1
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	98.09
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	98.08
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	98.08
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.06
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.04
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	98.04
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	98.04
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	98.03
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.02
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	98.0
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.98
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.91
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.9
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.88
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.83
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.81
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.79
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.76
d1okkd2	207	GTPase domain of the signal recognition particle r	97.68
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.66
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.66
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.63
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.62
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.6
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.59
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.59
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.58
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.57
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.56
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.53
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.52
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.52
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.51
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.51
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.5
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	97.48
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.48
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.46
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.44
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.43
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.43
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.4
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.39
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.38
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.37
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.35
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.35
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.3
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.29
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.28
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.27
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.27
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	97.26
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.26
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	97.26
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.24
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.23
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.22
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.21
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.2
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.19
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.18
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.16
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.16
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.15
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	97.15
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.15
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	97.13
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.12
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.11
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.11
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.1
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.08
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.08
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	97.08
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	97.07
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.06
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.03
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.02
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	97.01
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.99
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.97
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.97
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.96
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.95
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.93
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.92
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.92
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	96.92
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.91
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.91
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.88
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.88
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.87
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.84
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	96.84
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.83
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.83
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.82
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.82
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.81
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.78
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.74
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.73
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.73
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.72
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.71
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.68
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	96.68
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.64
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.63
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	96.61
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.61
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.57
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.56
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.56
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.56
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.55
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.54
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.54
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.53
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.53
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.48
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.48
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.47
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.46
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.46
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.44
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	96.44
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.43
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.41
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.37
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.36
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.36
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.35
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.33
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	96.32
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.32
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.32
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.31
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.31
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.3
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	96.3
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	96.29
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.26
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.14
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.11
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	96.11
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	96.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.09
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.08
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	96.08
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	96.06
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.05
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	96.04
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	96.03
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	96.01
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.01
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	96.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.99
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.93
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.92
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.91
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.79
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.79
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.66
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	95.62
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.61
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.45
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	95.36
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	95.28
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.19
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.84
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.75
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.59
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.57
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	94.56
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	94.52
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.24
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	94.2
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.12
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.08
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.0
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	93.98
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	93.97
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.94
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	93.81
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	93.79
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	93.67
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.57
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	93.56
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	93.41
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	93.36
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	93.33
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.33
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.32
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	93.29
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	93.28
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	93.25
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	92.93
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.83
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.67
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	92.61
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	92.6
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.21
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	92.13
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.1
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	92.09
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.01
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.97
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	91.95
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	91.68
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	91.43
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	91.39
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	91.38
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	91.29
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	91.23
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.19
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	91.08
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	90.86
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	90.77
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	90.68
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	90.54
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	90.42
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	90.37
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	90.18
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	90.02
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	89.97
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	89.95
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	89.78
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	89.44
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	89.2
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	87.87
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	87.66
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	87.55
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	87.51
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	87.37
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	87.22
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	87.22
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.13
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	85.55
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	83.76
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	83.62
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	82.8
d2axpa1	164	Hypothetical protein YorR {Bacillus subtilis [TaxI	82.06
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.96
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	80.51

>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=99.96  E-value=2.1e-28  Score=195.71  Aligned_cols=163  Identities=15%  Similarity=0.199  Sum_probs=136.7

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.+.+++++.+.+..++.+++.|...|+++++|+|||||||||||++++++|++++.+++.++.+.+..     
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~   81 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE   81 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTH
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccccc
Confidence            699999999999999999999899999999999999999999999999999999999999999999999876532     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc------------------------------------------h-hhhhhcc
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT------------------------------------------L-HILLRSS  109 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~------------------------------------------~-~a~~r~~  109 (204)
                       ...+..+|..+  ..|+||+|||+|.+.                                          + .+++|||
T Consensus        82 ~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~g  161 (258)
T d1e32a2          82 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  161 (258)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcc
Confidence             35666777665  588999999999980                                          0 0889999


Q ss_pred             ccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHHh
Q 041769          110 CMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQLM  163 (204)
Q Consensus       110 R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~~  163 (204)
                      |||..|.++.|+.++|..|++.++..........+..+.+. .||+++++..++.
T Consensus       162 Rfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~  216 (258)
T d1e32a2         162 RFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS  216 (258)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHH
T ss_pred             cccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHH
Confidence            99999999999999999999988865422222223344433 5899999998873

>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=99.95  E-value=3.6e-28  Score=193.98  Aligned_cols=161  Identities=17%  Similarity=0.270  Sum_probs=129.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++++|.+++++++.+.+. ++.+++.|..+|...++|+|||||||||||++|+++|++++.+++.++++++.      
T Consensus        10 t~~Di~Gl~~~k~~l~e~v~-~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~   88 (256)
T d1lv7a_          10 TFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV   88 (256)
T ss_dssp             CGGGSCSCHHHHHHTHHHHH-HHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCC
T ss_pred             CHHHHhchHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhH
Confidence            69999999999999988765 56777888999999999999999999999999999999999999999998874      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCcc---------------------------------------------ch-hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYL---------------------------------------------TL-HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~---------------------------------------------~~-~a~~  106 (204)
                      +...+.++|..+  ..|+||+|||+|.+                                             .+ .+++
T Consensus        89 ~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~  168 (256)
T d1lv7a_          89 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALL  168 (256)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHc
Confidence            346677888776  47899999999986                                             00 1888


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                      |+||||..+.++.|+.++|..|++.++..........+..+.+. .+|+++++..++
T Consensus       169 R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~  225 (256)
T d1lv7a_         169 RPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLV  225 (256)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             CCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHH
Confidence            89999999999999999999999988865533222233444443 679999999887

>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=99.95  E-value=8.9e-28  Score=190.83  Aligned_cols=161  Identities=20%  Similarity=0.262  Sum_probs=131.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-----
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-----   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-----   75 (204)
                      +|++|+|.+++++++.+.+ .++.+++.|..+|...++|+|||||||||||++|+++|++++.+++.++++.+..     
T Consensus         7 ~~~di~G~~~~k~~l~~~i-~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~   85 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV   85 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHH-HHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTH
T ss_pred             cHHHHccHHHHHHHHHHHH-HHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccH
Confidence            6999999999999997655 4577888899999999999999999999999999999999999999999887632     


Q ss_pred             -hHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           76 -NMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        76 -~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                       ...+.++|..+  ..|+||+|||+|.+.                                             + .+++
T Consensus        86 ~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~  165 (247)
T d1ixza_          86 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  165 (247)
T ss_dssp             HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGG
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHc
Confidence             35577888776  378999999999760                                             0 0788


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhh-CCCCHHHHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEK-ANVTLADVVEQL  162 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~i~~~~  162 (204)
                      |++||+..|.|+.|+.++|..|++.++..........+..+.+. .+|++++|.+++
T Consensus       166 R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv  222 (247)
T d1ixza_         166 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLL  222 (247)
T ss_dssp             STTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             CCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHH
Confidence            88999999999999999999999998865432222234444443 588999998877

>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=99.95  E-value=5.3e-28  Score=194.05  Aligned_cols=161  Identities=16%  Similarity=0.245  Sum_probs=134.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK------   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~------   74 (204)
                      +|++|+|.+++++++.+.+..++.+++.|...|.+.++|+|||||||||||++++++|++++.+++.++++.+.      
T Consensus         5 ~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~   84 (265)
T d1r7ra3           5 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE   84 (265)
T ss_dssp             SCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999987652      


Q ss_pred             ChHHHHHHHHhc--CCCeEEEEecCCccc---------------------------------------------h-hhhh
Q 041769           75 ENMELRNMLIAT--KNKSILVVGDIDYLT---------------------------------------------L-HILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~~--~~~~il~iDeid~~~---------------------------------------------~-~a~~  106 (204)
                      ....++.+|..+  ..|++|+|||+|.+.                                             + .+++
T Consensus        85 ~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~  164 (265)
T d1r7ra3          85 SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAIL  164 (265)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGG
T ss_pred             hHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHh
Confidence            235566777655  588999999999870                                             0 0888


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCC---CCCcHHHHHHHhhhCCCCHHHHHHHHh
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGIT---EHPLLTEIDELIEKANVTLADVVEQLM  163 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~i~~~~~  163 (204)
                      |+|||+..|.++.|+.++|..|++.++...   .......+...+  .||+++|+..+|.
T Consensus       165 r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t--~g~s~~di~~lv~  222 (265)
T d1r7ra3         165 RPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMT--NGFSGADLTEICQ  222 (265)
T ss_dssp             SSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHH--CSSCCHHHHHHHH
T ss_pred             CCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcC--CCCCHHHHHHHHH
Confidence            899999999999999999999999887643   122223444433  6899999998873

>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=99.81  E-value=4.9e-19  Score=138.47  Aligned_cols=124  Identities=19%  Similarity=0.257  Sum_probs=100.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++.+++.+..++.......        ....++|||||||||||++|+++|++++.++..++.+.......+.
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~--------~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~~~~   78 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRG--------EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA   78 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHT--------CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHH
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcC--------CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHHHHH
Confidence            58999999999998877776543211        2235699999999999999999999999999999998888888888


Q ss_pred             HHHHhcCCCeEEEEecCCccchh------------------------------------------------hhhhccccc
Q 041769           81 NMLIATKNKSILVVGDIDYLTLH------------------------------------------------ILLRSSCMD  112 (204)
Q Consensus        81 ~~~~~~~~~~il~iDeid~~~~~------------------------------------------------a~~r~~R~~  112 (204)
                      ..+.......++++||++.+.-.                                                +++  .||+
T Consensus        79 ~~~~~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~--~r~~  156 (238)
T d1in4a2          79 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLR--SRFG  156 (238)
T ss_dssp             HHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHH--TTCS
T ss_pred             HHHHhhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccce--eeee
Confidence            88888888999999999999110                                                222  3888


Q ss_pred             eeEecCCCCHHHHHHHHHHhhC
Q 041769          113 MHIHMSYCTPFRFKMLASNYFG  134 (204)
Q Consensus       113 ~~i~~~~p~~~~~~~i~~~~~~  134 (204)
                      ..+.+..|+..++..++.....
T Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~  178 (238)
T d1in4a2         157 IILELDFYTVKELKEIIKRAAS  178 (238)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEEecCCCHHHHHHHHHHhhh
Confidence            8889999999988777665543

>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=99.75  E-value=2.4e-17  Score=128.84  Aligned_cols=92  Identities=24%  Similarity=0.344  Sum_probs=72.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELR   80 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   80 (204)
                      +|++++|++.+++.+...+.....        +-..+.++|||||||||||++|+++|++++.++..++.+.........
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~   78 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLA   78 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhH
Confidence            689999999998888666653322        112346799999999999999999999999999999988877665555


Q ss_pred             HHHHhc-CCCeEEEEecCCcc
Q 041769           81 NMLIAT-KNKSILVVGDIDYL  100 (204)
Q Consensus        81 ~~~~~~-~~~~il~iDeid~~  100 (204)
                      ..+... ....++++||+|.+
T Consensus        79 ~~~~~~~~~~~i~~iDe~~~~   99 (239)
T d1ixsb2          79 AILANSLEEGDILFIDEIHRL   99 (239)
T ss_dssp             HHHHTTCCTTCEEEEETGGGC
T ss_pred             HHHHhhccCCCeeeeeccccc
Confidence            444443 46679999999999

>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=99.73  E-value=1.5e-16  Score=124.80  Aligned_cols=167  Identities=13%  Similarity=0.145  Sum_probs=111.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHH----HHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEF----YRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN   76 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~   76 (204)
                      +|++++|++..++++.+++..+......    ....+.....+++||||||||||++|+++|++++.+++.++.+.....
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~   91 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK   91 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCH
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhh
Confidence            5899999999999998888876543221    112233445679999999999999999999999999999999887766


Q ss_pred             HHHHHHHHhc--------------------CCCeEEEEecCCccchh----------------------------hhhh-
Q 041769           77 MELRNMLIAT--------------------KNKSILVVGDIDYLTLH----------------------------ILLR-  107 (204)
Q Consensus        77 ~~~~~~~~~~--------------------~~~~il~iDeid~~~~~----------------------------a~~r-  107 (204)
                      ..+...+...                    ....++++||++.++..                            ..++ 
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~~~~~~~~~~~  171 (253)
T d1sxja2          92 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRP  171 (253)
T ss_dssp             HHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEEESCTTSSTTGG
T ss_pred             HHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccccccccccccccccccccc
Confidence            5554433221                    14679999999988111                            1111 


Q ss_pred             ccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHHHHhc-CCCHHHHHHhHHHHHH
Q 041769          108 SSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMR-NKVPEIALRGLTDVFK  180 (204)
Q Consensus       108 ~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~~~~~-~~~~~~~~~~~~~~~~  180 (204)
                      ..|+...+.|..|+..++..++...+..             +...+++..+..++.. .++.+.++..+..+..
T Consensus       172 l~~~~~~i~f~~~~~~~i~~~l~~i~~~-------------e~i~i~~~~l~~i~~~s~GDiR~ai~~L~~~~~  232 (253)
T d1sxja2         172 FDRVCLDIQFRRPDANSIKSRLMTIAIR-------------EKFKLDPNVIDRLIQTTRGDIRQVINLLSTIST  232 (253)
T ss_dssp             GTTTSEEEECCCCCHHHHHHHHHHHHHH-------------HTCCCCTTHHHHHHHHTTTCHHHHHHHHTHHHH
T ss_pred             ccceeeeeeccccchhHHHHHHHHHHHH-------------hCCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            1367788999999999887766544311             1233455445444433 2355555555544433

>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=99.72  E-value=7.7e-18  Score=137.08  Aligned_cols=129  Identities=15%  Similarity=0.273  Sum_probs=95.1

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-------
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-------   75 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-------   75 (204)
                      .|+|+++.++.+...+..++.......... -.++.|+||+||||||||.+|+++|+.++.+++.++++.+..       
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            479999999998877755443221111111 123578999999999999999999999999999999988742       


Q ss_pred             -hHHHHHHHHhcC-------CCeEEEEecCCccch---------------h-----------------------------
Q 041769           76 -NMELRNMLIATK-------NKSILVVGDIDYLTL---------------H-----------------------------  103 (204)
Q Consensus        76 -~~~~~~~~~~~~-------~~~il~iDeid~~~~---------------~-----------------------------  103 (204)
                       ...+..+|..+.       +++||||||+|++..               +                             
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~g  174 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASG  174 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEE
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEecc
Confidence             245666666653       379999999999810               0                             


Q ss_pred             -------hhhhc---cccceeEecCCCCHHHHHHHHHHh
Q 041769          104 -------ILLRS---SCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus       104 -------a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                             ..++|   +||+..+.++.|+...+..++..+
T Consensus       175 a~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~~~  213 (309)
T d1ofha_         175 AFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEP  213 (309)
T ss_dssp             CCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSS
T ss_pred             chhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHHHH
Confidence                   12223   799999999999999998887643

>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=99.68  E-value=3.7e-16  Score=123.07  Aligned_cols=94  Identities=23%  Similarity=0.286  Sum_probs=69.3

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccC-------h
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKE-------N   76 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~-------~   76 (204)
                      -+++..+..+.+.+....+.....   .....+++|+|||||||||||++|+++|++++.+++.++.++...       .
T Consensus        10 ~~i~~~~~i~~i~~~~~~~~~~~~---~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~   86 (246)
T d1d2na_          10 GIIKWGDPVTRVLDDGELLVQQTK---NSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKC   86 (246)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHH---HCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHH
T ss_pred             CCcCcCHHHHHHHHHHHHHHHHHh---ccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchh
Confidence            355656666777777776665322   222334678999999999999999999999999999998776421       1


Q ss_pred             HHHHHHHHhc--CCCeEEEEecCCcc
Q 041769           77 MELRNMLIAT--KNKSILVVGDIDYL  100 (204)
Q Consensus        77 ~~~~~~~~~~--~~~~il~iDeid~~  100 (204)
                      ..++.+|..+  ..++||+|||+|.+
T Consensus        87 ~~i~~if~~A~~~~p~il~iDEid~l  112 (246)
T d1d2na_          87 QAMKKIFDDAYKSQLSCVVVDDIERL  112 (246)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHH
T ss_pred             hhhhhhhhhhhhcccceeehhhhhhH
Confidence            3466677666  36799999999875

>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=99.61  E-value=1.6e-16  Score=129.20  Aligned_cols=105  Identities=10%  Similarity=0.080  Sum_probs=83.7

Q ss_pred             HHHhCCCCCcee-EEECCCCCcHHHHHHHHHHhcC--CceEEeecCCccC------hHHHHHHHHhcCCCeEEEEecCCc
Q 041769           29 YRNVGKAWKHSY-FLYGPPGTGKSSLIAAMTNYLN--FDVYDLELTTFKE------NMELRNMLIATKNKSILVVGDIDY   99 (204)
Q Consensus        29 ~~~~~~~~~~g~-ll~Gp~GtGKT~la~~la~~~~--~~~~~~~~~~~~~------~~~~~~~~~~~~~~~il~iDeid~   99 (204)
                      +..+|...++|+ |||||||||||.+|++||.+++  .+++.++.+++.+      ...++.+|..+..++||||||||.
T Consensus       114 ~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~~~ilf~DEid~  193 (321)
T d1w44a_         114 AEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKN  193 (321)
T ss_dssp             EEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCTT
T ss_pred             HHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhhccEEEeehhhh
Confidence            334455556775 5589999999999999999986  6788899888742      367888888888889999999999


Q ss_pred             c---------------c-------------------------------h-hhhhhccccceeEecCCCCHHHHHHHHHHh
Q 041769          100 L---------------T-------------------------------L-HILLRSSCMDMHIHMSYCTPFRFKMLASNY  132 (204)
Q Consensus       100 ~---------------~-------------------------------~-~a~~r~~R~~~~i~~~~p~~~~~~~i~~~~  132 (204)
                      +               +                               + .++.|++||+.++.++.|+...+..|+..+
T Consensus       194 ~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~~~  273 (321)
T d1w44a_         194 VIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTRT  273 (321)
T ss_dssp             TC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEEEC
T ss_pred             hccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCCCcccccchhhhhhccCcccceeecCCCChHHHHHHHHHh
Confidence            8               0                               0 167889999999999999999887766544


Q ss_pred             h
Q 041769          133 F  133 (204)
Q Consensus       133 ~  133 (204)
                      .
T Consensus       274 ~  274 (321)
T d1w44a_         274 G  274 (321)
T ss_dssp             B
T ss_pred             c
Confidence            3

>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=99.57  E-value=7.3e-15  Score=113.86  Aligned_cols=117  Identities=14%  Similarity=0.144  Sum_probs=79.5

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~~~   75 (204)
                      +|++++|++++++.+..++..    .         ...+++||||||+|||++|+++|++++     .+++.++.++...
T Consensus        22 ~~~diig~~~~~~~l~~~i~~----~---------~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~   88 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKT----G---------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG   88 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHH----T---------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHc----C---------CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccc
Confidence            589999998888777665531    1         124599999999999999999999874     4677888776543


Q ss_pred             hHHHHHHHHh--------cCCCeEEEEecCCccchh------------------------------hhhhccccceeEec
Q 041769           76 NMELRNMLIA--------TKNKSILVVGDIDYLTLH------------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~~~~--------~~~~~il~iDeid~~~~~------------------------------a~~r~~R~~~~i~~  117 (204)
                      ...++..+..        .....++++||+|.+...                              ++.  +|+. .+.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~--sR~~-~i~~  165 (231)
T d1iqpa2          89 INVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ--SRCA-IFRF  165 (231)
T ss_dssp             HHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH--HTEE-EEEC
T ss_pred             hhHHHHHHHHHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHh--Cccc-cccc
Confidence            3222222221        136789999999988111                              222  2554 4888


Q ss_pred             CCCCHHHHHHHHHHhh
Q 041769          118 SYCTPFRFKMLASNYF  133 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~~  133 (204)
                      ..|+......++.+.+
T Consensus       166 ~~~~~~~~~~~l~~~~  181 (231)
T d1iqpa2         166 RPLRDEDIAKRLRYIA  181 (231)
T ss_dssp             CCCCHHHHHHHHHHHH
T ss_pred             cccchhhHHHHHHHHH
Confidence            8888888766665544

>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=99.57  E-value=1.4e-13  Score=106.18  Aligned_cols=153  Identities=13%  Similarity=0.097  Sum_probs=99.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC-----CceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN-----FDVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~-----~~~~~~~~~~~~~   75 (204)
                      +|++++|++++++.+.+.+.    ..         ...+++||||||+|||++|+.+|++++     ..++.++.++..+
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~----~~---------~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~   79 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAK----DG---------NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG   79 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHH----SC---------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS
T ss_pred             CHHHhcCCHHHHHHHHHHHH----cC---------CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCC
Confidence            58999999888777755543    11         123599999999999999999999985     3578888888766


Q ss_pred             hHHHHHHHHhc---------CCCeEEEEecCCccchh-----------------------------hhhhccccceeEec
Q 041769           76 NMELRNMLIAT---------KNKSILVVGDIDYLTLH-----------------------------ILLRSSCMDMHIHM  117 (204)
Q Consensus        76 ~~~~~~~~~~~---------~~~~il~iDeid~~~~~-----------------------------a~~r~~R~~~~i~~  117 (204)
                      ...+...+...         ....++++||+|.++-.                             .-++ +|+ ..+.|
T Consensus        80 ~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~-sr~-~~i~~  157 (224)
T d1sxjb2          80 IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQ-SQC-AILRY  157 (224)
T ss_dssp             HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHH-TTS-EEEEC
T ss_pred             ceehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHH-HHH-HHhhh
Confidence            55444333221         24579999999999211                             2222 255 45899


Q ss_pred             CCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHHHHhc-CCCHHHHHHhHHHHHHh
Q 041769          118 SYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMR-NKVPEIALRGLTDVFKI  181 (204)
Q Consensus       118 ~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~~~~~-~~~~~~~~~~~~~~~~~  181 (204)
                      ..|+..+...++.+.+.             .+...+++..+...+.. .++.+.+++.+...+..
T Consensus       158 ~~~~~~~i~~~l~~i~~-------------~e~~~i~~~~l~~I~~~s~Gd~R~ai~~Lq~~~~~  209 (224)
T d1sxjb2         158 SKLSDEDVLKRLLQIIK-------------LEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAG  209 (224)
T ss_dssp             CCCCHHHHHHHHHHHHH-------------HHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccchhhhHHHHHHHHH-------------hcccCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Confidence            99999887665543221             12344555555444432 45777777777555443

>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=99.52  E-value=1.7e-12  Score=101.15  Aligned_cols=88  Identities=18%  Similarity=0.376  Sum_probs=65.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----------------
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----------------   63 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----------------   63 (204)
                      +|++++|++++++.+...+..    .        ..+.++|||||||+|||++|+++++.++.                 
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~----~--------~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~   77 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSL----G--------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   77 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHT----T--------CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             CHHHccChHHHHHHHHHHHHc----C--------CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHH
Confidence            589999998887776555431    1        22556999999999999999999998742                 


Q ss_pred             -------ceEEeecCCccChHHHHHHHHhcC------CCeEEEEecCCcc
Q 041769           64 -------DVYDLELTTFKENMELRNMLIATK------NKSILVVGDIDYL  100 (204)
Q Consensus        64 -------~~~~~~~~~~~~~~~~~~~~~~~~------~~~il~iDeid~~  100 (204)
                             .++.++.++......+++++....      ...+++|||+|.+
T Consensus        78 i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l  127 (239)
T d1njfa_          78 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHML  127 (239)
T ss_dssp             HHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGS
T ss_pred             HHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccC
Confidence                   356666665555566777766652      3469999999999

>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=99.51  E-value=2.3e-14  Score=116.56  Aligned_cols=162  Identities=12%  Similarity=0.246  Sum_probs=105.7

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCc-eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccCh----
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKH-SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKEN----   76 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~-g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~----   76 (204)
                      ..|+|+++.++.+...+.....      .+.- ..|. .++|+||||||||.+|++||+.++.+++.++++.+...    
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~------~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~   95 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARA------GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVS   95 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHT------TCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCS
T ss_pred             CeecChHHHHHHHHHHHHHHHc------cCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhh
Confidence            3578999998888777654321      1111 1234 48899999999999999999999999999999876421    


Q ss_pred             ---------------HHHHHHHHhcCCCeEEEEecCCccchh--------------------------------------
Q 041769           77 ---------------MELRNMLIATKNKSILVVGDIDYLTLH--------------------------------------  103 (204)
Q Consensus        77 ---------------~~~~~~~~~~~~~~il~iDeid~~~~~--------------------------------------  103 (204)
                                     ..+...+ ...+.+++++||+|....+                                      
T Consensus        96 ~l~g~~~gy~g~~~~~~l~~~~-~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~  174 (315)
T d1r6bx3          96 RLIGAPPGYVGFDQGGLLTDAV-IKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVR  174 (315)
T ss_dssp             SSCCCCSCSHHHHHTTHHHHHH-HHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC
T ss_pred             hhcccCCCccccccCChhhHHH-HhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccchhhH
Confidence                           1122222 2356789999999998100                                      


Q ss_pred             -----------------------hhhhc---cccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhC----CC
Q 041769          104 -----------------------ILLRS---SCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKA----NV  153 (204)
Q Consensus       104 -----------------------a~~r~---~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~----~l  153 (204)
                                             ..++|   +|+|..+.|...+.+....|+..++        .++...+...    .+
T Consensus       175 ~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l--------~~~~~~l~~~~i~l~~  246 (315)
T d1r6bx3         175 ETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFI--------VELQVQLDQKGVSLEV  246 (315)
T ss_dssp             -----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHH--------HHHHHHHHHTTEEEEE
T ss_pred             HHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHH--------HHHHHHHHhcCcchhh
Confidence                                   23344   7999999999999988888876654        3333333332    23


Q ss_pred             CHHHHHHHHhc-CCCHHHHHHhHHHHHH
Q 041769          154 TLADVVEQLMR-NKVPEIALRGLTDVFK  180 (204)
Q Consensus       154 ~~~~i~~~~~~-~~~~~~~~~~~~~~~~  180 (204)
                      +.+.+ .+++. ..++....|.+.+.++
T Consensus       247 ~~~a~-~~l~~~~yd~~~GaR~L~r~Ie  273 (315)
T d1r6bx3         247 SQEAR-NWLAEKGYDRAMGARPMARVIQ  273 (315)
T ss_dssp             CHHHH-HHHHHHHCBTTTBTTTHHHHHH
T ss_pred             HHHHH-HHHHHhCCCCCCChhhHHHHHH
Confidence            44443 44433 3445444555555554

>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=99.47  E-value=4.9e-13  Score=110.50  Aligned_cols=97  Identities=23%  Similarity=0.349  Sum_probs=71.6

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHH------------------HHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFY------------------RNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~------------------~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +.|+||++.++.+...+...+.+...-                  .+... ++..+||.||+|||||.+|++||+.++.+
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~-p~~niLfiGPTGvGKTElAk~LA~~~~~~   95 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVEL-SKSNILLIGPTGSGKTLMAQTLAKHLDIP   95 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTC-CCCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccC-CCcceeeeCCCCccHHHHHHHHHhhcccc
Confidence            358999999999887776554432211                  11122 34569999999999999999999999999


Q ss_pred             eEEeecCCccC--------hHHHHHHHHhcC------CCeEEEEecCCcc
Q 041769           65 VYDLELTTFKE--------NMELRNMLIATK------NKSILVVGDIDYL  100 (204)
Q Consensus        65 ~~~~~~~~~~~--------~~~~~~~~~~~~------~~~il~iDeid~~  100 (204)
                      ++.++++.+..        ...+.+.+....      +.+++++||++..
T Consensus        96 ~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~  145 (364)
T d1um8a_          96 IAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKI  145 (364)
T ss_dssp             EEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC
T ss_pred             eeehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhh
Confidence            99999998754        345555555442      5789999999993

>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=99.47  E-value=2.9e-13  Score=104.34  Aligned_cols=87  Identities=22%  Similarity=0.339  Sum_probs=59.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcCC-----ceEEeecCCccC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNF-----DVYDLELTTFKE   75 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~-----~~~~~~~~~~~~   75 (204)
                      +|++++|++++++.+..++.    ...         ..+++||||||+|||++++++|++++.     .+...+.++...
T Consensus        12 ~~~divg~~~~~~~L~~~i~----~~~---------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~   78 (227)
T d1sxjc2          12 TLDEVYGQNEVITTVRKFVD----EGK---------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRG   78 (227)
T ss_dssp             SGGGCCSCHHHHHHHHHHHH----TTC---------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCS
T ss_pred             CHHHccCcHHHHHHHHHHHH----cCC---------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCC
Confidence            58999999887777655543    211         224999999999999999999998742     355666666544


Q ss_pred             hHHHHHHHHhc--------CCCeEEEEecCCcc
Q 041769           76 NMELRNMLIAT--------KNKSILVVGDIDYL  100 (204)
Q Consensus        76 ~~~~~~~~~~~--------~~~~il~iDeid~~  100 (204)
                      .......+...        ....+++|||+|.+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~  111 (227)
T d1sxjc2          79 IDVVRNQIKDFASTRQIFSKGFKLIILDEADAM  111 (227)
T ss_dssp             HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGS
T ss_pred             eeeeecchhhccccccccCCCeEEEEEeccccc
Confidence            33222221111        24469999999998

>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=99.44  E-value=2e-14  Score=118.82  Aligned_cols=94  Identities=18%  Similarity=0.139  Sum_probs=70.0

Q ss_pred             hCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHH-------HHhc--------CCCeEEEEec
Q 041769           32 VGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNM-------LIAT--------KNKSILVVGD   96 (204)
Q Consensus        32 ~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~--------~~~~il~iDe   96 (204)
                      .|.|.+++++||||||||||++++++|+.++.+++++++++......+...       |..+        ..++++++||
T Consensus       149 ~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~De  228 (362)
T d1svma_         149 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINN  228 (362)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHH
T ss_pred             hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeEEEeh
Confidence            478888999999999999999999999999999999998876543222111       1111        1346777777


Q ss_pred             CCcc-----------------------------c----hhhhhhccccceeEecCCCCHHHH
Q 041769           97 IDYL-----------------------------T----LHILLRSSCMDMHIHMSYCTPFRF  125 (204)
Q Consensus        97 id~~-----------------------------~----~~a~~r~~R~~~~i~~~~p~~~~~  125 (204)
                      +|.+                             |    ..+..|++||+..+.+..|....+
T Consensus       229 iD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~  290 (362)
T d1svma_         229 LDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKH  290 (362)
T ss_dssp             HHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCCHHHHTTEEEEEECCCCHHHHH
T ss_pred             HhhcccccCCcchhhhhhhhhchhhhccCCceeecccccccccccccCceEEeecCCCcHHH
Confidence            7766                             0    016778899999999988876654

>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=99.43  E-value=1.1e-12  Score=101.23  Aligned_cols=150  Identities=17%  Similarity=0.158  Sum_probs=90.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc------CCceEEeecCCcc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL------NFDVYDLELTTFK   74 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~------~~~~~~~~~~~~~   74 (204)
                      +|++++|++..++.+...+.    ...         ..+++|+||||+|||++++++++++      ....+.++.+...
T Consensus        10 ~~~diig~~~~~~~l~~~i~----~~~---------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~   76 (237)
T d1sxjd2          10 NLDEVTAQDHAVTVLKKTLK----SAN---------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDER   76 (237)
T ss_dssp             STTTCCSCCTTHHHHHHHTT----CTT---------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCC
T ss_pred             CHHHccCcHHHHHHHHHHHH----cCC---------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccc
Confidence            58999999888777644432    211         2349999999999999999999986      4566667766554


Q ss_pred             ChHHHHHHHHh----c--------------CCCeEEEEecCCccchh------------------------------hhh
Q 041769           75 ENMELRNMLIA----T--------------KNKSILVVGDIDYLTLH------------------------------ILL  106 (204)
Q Consensus        75 ~~~~~~~~~~~----~--------------~~~~il~iDeid~~~~~------------------------------a~~  106 (204)
                      ........+..    .              ....+++|||+|.++..                              ++.
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~  156 (237)
T d1sxjd2          77 GISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLA  156 (237)
T ss_dssp             CHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             cchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhcccccccccccccccccccccccccc
Confidence            33222111111    0              13458999999998211                              222


Q ss_pred             hccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHHHHhc-CCCHHHHHHhHHHHH
Q 041769          107 RSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVEQLMR-NKVPEIALRGLTDVF  179 (204)
Q Consensus       107 r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~~~~~-~~~~~~~~~~~~~~~  179 (204)
                        .|+ ..+.|..|+..+...++...+..             +...+++..+..+... .++.+.+++.+..++
T Consensus       157 --sr~-~~i~f~~~~~~~~~~~L~~i~~~-------------e~i~i~~~~l~~ia~~s~gd~R~ai~~L~~~~  214 (237)
T d1sxjd2         157 --SQC-SKFRFKALDASNAIDRLRFISEQ-------------ENVKCDDGVLERILDISAGDLRRGITLLQSAS  214 (237)
T ss_dssp             --HHS-EEEECCCCCHHHHHHHHHHHHHT-------------TTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTH
T ss_pred             --chh-hhhccccccccccchhhhhhhhh-------------hcCcCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence              255 45788888888876665543221             1223455444444433 346666666554443

>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=99.40  E-value=2.4e-13  Score=110.37  Aligned_cols=90  Identities=17%  Similarity=0.345  Sum_probs=64.0

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCC-CCCc-eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChH-
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGK-AWKH-SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENM-   77 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~-g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~-   77 (204)
                      .|+||++.++.+...+.....      .+.- ..|. .++|+||+|+|||.+|+.||+.+   +.+++.++++++.... 
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~------~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~   97 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARA------GLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA   97 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGG------GCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGG
T ss_pred             eEeCHHHHHHHHHHHHHHHhc------CCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchh
Confidence            578998888888776654321      1111 1234 37899999999999999999998   6789999998775321 


Q ss_pred             ------------------HHHHHHHhcCCCeEEEEecCCcc
Q 041769           78 ------------------ELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        78 ------------------~~~~~~~~~~~~~il~iDeid~~  100 (204)
                                        .+.+.+.. .+.+|++|||+|.+
T Consensus        98 ~~~L~g~~~gyvG~~~~~~l~~~~~~-~p~~Vvl~DEieK~  137 (315)
T d1qvra3          98 VSRLIGAPPGYVGYEEGGQLTEAVRR-RPYSVILFDEIEKA  137 (315)
T ss_dssp             GGGC--------------CHHHHHHH-CSSEEEEESSGGGS
T ss_pred             hhhhcCCCCCCcCcccCChHHHHHHh-CCCcEEEEehHhhc
Confidence                              23333332 35789999999998

>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=99.38  E-value=7.8e-12  Score=98.86  Aligned_cols=158  Identities=15%  Similarity=0.219  Sum_probs=99.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      ++.++|.++..+++.+.+.             .....+++|+||||+|||++++.+|+..          +..++.++++
T Consensus        17 ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~   83 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG   83 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC
T ss_pred             CCcccChHHHHHHHHHHHh-------------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec
Confidence            4556777655555533332             1224679999999999999999999875          5689999988


Q ss_pred             CccCh--------HHHHHHHHhc--CCCeEEEEecCCcc---------chh-----------------------------
Q 041769           72 TFKEN--------MELRNMLIAT--KNKSILVVGDIDYL---------TLH-----------------------------  103 (204)
Q Consensus        72 ~~~~~--------~~~~~~~~~~--~~~~il~iDeid~~---------~~~-----------------------------  103 (204)
                      .+...        ..+..++...  ..+.|+||||++.+         +++                             
T Consensus        84 ~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~~~  163 (268)
T d1r6bx2          84 SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIF  163 (268)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCCC
T ss_pred             hHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHHH
Confidence            76431        3344555554  35689999999998         011                             


Q ss_pred             ----hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHH-------HHhcCCCHHHHH
Q 041769          104 ----ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVE-------QLMRNKVPEIAL  172 (204)
Q Consensus       104 ----a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~-------~~~~~~~~~~~~  172 (204)
                          ++.|  ||.. |.+..|+.++-..|+..+..        .+.. -....++++.+..       ++-.+..|+.++
T Consensus       164 e~d~al~r--rF~~-I~V~Eps~e~t~~IL~~~~~--------~~e~-~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAI  231 (268)
T d1r6bx2         164 EKDRALAR--RFQK-IDITEPSIEETVQIINGLKP--------KYEA-HHDVRYTAKAVRAAVELAVKYINDRHLPDKAI  231 (268)
T ss_dssp             CCTTSSGG--GEEE-EECCCCCHHHHHHHHHHHHH--------HHHH-HHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHH
T ss_pred             hhcHHHHh--hhcc-cccCCCCHHHHHHHHHHhhH--------HHhc-cCCEEeChHHHHHHHHHHHhhccCCCCCcHHH
Confidence                4555  7776 89999998886666543221        1110 0112333333222       334467899999


Q ss_pred             HhHHHHHHhhhh
Q 041769          173 RGLTDVFKIKQT  184 (204)
Q Consensus       173 ~~~~~~~~~~~~  184 (204)
                      +-+...+...+.
T Consensus       232 dllDea~a~~~~  243 (268)
T d1r6bx2         232 DVIDEAGARARL  243 (268)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999888876654

>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=99.30  E-value=6.3e-11  Score=98.26  Aligned_cols=158  Identities=11%  Similarity=0.209  Sum_probs=91.8

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      ++-++|.++...++.+.+.   .          ..+.+++|+||||+|||+++..+|+..          +..++.++++
T Consensus        21 ld~~~gr~~ei~~~~~~L~---r----------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~   87 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILL---R----------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG   87 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHH---C----------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-
T ss_pred             CCCCcCcHHHHHHHHHHHh---c----------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHh
Confidence            5667787766666544443   1          224568999999999999999999865          4689999998


Q ss_pred             CccCh--------HHHHHHHHhc---CCCeEEEEecCCcc--------chh-----------------------------
Q 041769           72 TFKEN--------MELRNMLIAT---KNKSILVVGDIDYL--------TLH-----------------------------  103 (204)
Q Consensus        72 ~~~~~--------~~~~~~~~~~---~~~~il~iDeid~~--------~~~-----------------------------  103 (204)
                      .+.+.        ..+..++...   ..+.||||||++.+        +++                             
T Consensus        88 ~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~I~~tT~~ey~~~e  167 (387)
T d1qvra2          88 SLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREIE  167 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHHHT
T ss_pred             hhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcceeeecCHHHHHHhc
Confidence            87533        2333444443   34678999999998        111                             


Q ss_pred             ---hhhhccccceeEecCCCCHHHHHHHHHHhhCCCCCCcHHHHHHHhhhCCCCHHHHHH-------HHhcCCCHHHHHH
Q 041769          104 ---ILLRSSCMDMHIHMSYCTPFRFKMLASNYFGITEHPLLTEIDELIEKANVTLADVVE-------QLMRNKVPEIALR  173 (204)
Q Consensus       104 ---a~~r~~R~~~~i~~~~p~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~-------~~~~~~~~~~~~~  173 (204)
                         ++.|  ||.. |.+..|+.++-..|++....        .+.... ...+++..+..       |+-.+..|+.+++
T Consensus       168 ~d~al~r--rF~~-v~v~ep~~~~~~~il~~~~~--------~~e~~h-~v~~~~~ai~~~v~ls~ryi~~r~~PdKAid  235 (387)
T d1qvra2         168 KDPALER--RFQP-VYVDEPTVEETISILRGLKE--------KYEVHH-GVRISDSAIIAAATLSHRYITERRLPDKAID  235 (387)
T ss_dssp             TCTTTCS--CCCC-EEECCCCHHHHHHHHHHHHH--------HHHHHT-TCEECHHHHHHHHHHHHHHCCSSCTHHHHHH
T ss_pred             ccHHHHH--hccc-ccCCCCcHHHHHHHHHHHHH--------HHHhcc-CCcccHHHHHHHHHhcccccccccChhhHHH
Confidence               4444  7877 88999998876555543211        111000 11223222222       2334567888888


Q ss_pred             hHHHHHHhhhh
Q 041769          174 GLTDVFKIKQT  184 (204)
Q Consensus       174 ~~~~~~~~~~~  184 (204)
                      -+...+...+-
T Consensus       236 lld~a~a~~~i  246 (387)
T d1qvra2         236 LIDEAAARLRM  246 (387)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88777766543

>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=99.27  E-value=3.4e-12  Score=99.33  Aligned_cols=49  Identities=20%  Similarity=0.388  Sum_probs=36.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +|++++|+++++..+...+    ....        ...+++||||||+|||++|+++|+.+
T Consensus         9 ~~~diig~~~~~~~L~~~~----~~~~--------~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLS----DQPR--------DLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTT----TCTT--------CCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHH----HcCC--------CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            5899999987766664332    2111        13359999999999999999999986

>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=99.25  E-value=6.4e-11  Score=92.78  Aligned_cols=125  Identities=10%  Similarity=0.057  Sum_probs=76.1

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC---------CceEEeecCCc
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN---------FDVYDLELTTF   73 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~---------~~~~~~~~~~~   73 (204)
                      +.+.+.+++.+.+.+.+.....+...    .-.....++||||||||||++++++++.+.         ..+..++....
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~----~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAG----LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   91 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSC----BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCC----CCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccc
Confidence            56777777778887766554432110    001112367899999999999999999872         23344444332


Q ss_pred             cCh----------------------H----HHHHHHHhcCCCeEEEEecCCccc------------hh------------
Q 041769           74 KEN----------------------M----ELRNMLIATKNKSILVVGDIDYLT------------LH------------  103 (204)
Q Consensus        74 ~~~----------------------~----~~~~~~~~~~~~~il~iDeid~~~------------~~------------  103 (204)
                      ...                      .    .+...........++++|++|.+.            +.            
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~  171 (287)
T d1w5sa2          92 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  171 (287)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcc
Confidence            221                      1    111222223466788999999870            00            


Q ss_pred             ----------------h-----hhhccccceeEecCCCCHHHHHHHHHH
Q 041769          104 ----------------I-----LLRSSCMDMHIHMSYCTPFRFKMLASN  131 (204)
Q Consensus       104 ----------------a-----~~r~~R~~~~i~~~~p~~~~~~~i~~~  131 (204)
                                      .     .....|+...+.|+.++..+...++..
T Consensus       172 ~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~  220 (287)
T d1w5sa2         172 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQ  220 (287)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHH
T ss_pred             cceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhh
Confidence                            0     000247888999999999998877764

>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=99.24  E-value=4.9e-10  Score=87.10  Aligned_cols=63  Identities=16%  Similarity=0.129  Sum_probs=46.3

Q ss_pred             ccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC----CceEEeecCC
Q 041769            3 DTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN----FDVYDLELTT   72 (204)
Q Consensus         3 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~----~~~~~~~~~~   72 (204)
                      +.+++.+.+.+.+.+.+...+.++.       ..+.+++|+||||||||++++++++.+.    ..++.++...
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~-------~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~   82 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI   82 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCC-------CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchh
Confidence            5678888888888777765544321       2356799999999999999999999873    4455555443

>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=99.24  E-value=3.1e-11  Score=92.48  Aligned_cols=63  Identities=25%  Similarity=0.459  Sum_probs=45.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccCh-------HHHHHHHHhcCCCeEEEEecCCcc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKEN-------MELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      ..+++|||||||||+|++++++++   +..+++++.......       ..............+|+|||+|.+
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i  109 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFL  109 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGG
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhhHHHHHhhccchhhhhhhhh
Confidence            349999999999999999999998   567777776554211       112233333446789999999988

>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=99.23  E-value=2.1e-11  Score=91.80  Aligned_cols=86  Identities=17%  Similarity=0.354  Sum_probs=60.3

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc----------CCceEEeecC
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL----------NFDVYDLELT   71 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~----------~~~~~~~~~~   71 (204)
                      ++.++|.++..+++.+.+.             .....+++|+||||+|||++++.+|+..          +..++.++.+
T Consensus        21 ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~   87 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQVLQ-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG   87 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH
T ss_pred             CCCCcCcHHHHHHHHHHHh-------------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH
Confidence            4566777655555532222             2224679999999999999999999866          5789999988


Q ss_pred             CccCh--------HHHHHHHHhc---CCCeEEEEecCCcc
Q 041769           72 TFKEN--------MELRNMLIAT---KNKSILVVGDIDYL  100 (204)
Q Consensus        72 ~~~~~--------~~~~~~~~~~---~~~~il~iDeid~~  100 (204)
                      .+.+.        ..+..++...   ..+.||||||++.+
T Consensus        88 ~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l  127 (195)
T d1jbka_          88 ALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             HHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGG
T ss_pred             HHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHH
Confidence            76422        2334455443   34679999999998

>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=99.07  E-value=4.1e-11  Score=93.76  Aligned_cols=41  Identities=29%  Similarity=0.409  Sum_probs=36.9

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF   73 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~   73 (204)
                      +...|.|++||||||||||++|++||.+++.+++.++++.+
T Consensus        28 ~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~   68 (273)
T d1gvnb_          28 AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   68 (273)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHH
Confidence            45567899999999999999999999999999999998665

>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=98.95  E-value=1.5e-08  Score=76.69  Aligned_cols=65  Identities=26%  Similarity=0.349  Sum_probs=44.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC------------------------CceEEeecCCc---cChHHHHHHHHhcC--
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN------------------------FDVYDLELTTF---KENMELRNMLIATK--   87 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~------------------------~~~~~~~~~~~---~~~~~~~~~~~~~~--   87 (204)
                      +.+++|+||||+|||++|+.+|+.+-                        ..++.+....-   .....++++.....  
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~  103 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhhc
Confidence            56699999999999999999999762                        23344433221   22345555555432  


Q ss_pred             ----CCeEEEEecCCccc
Q 041769           88 ----NKSILVVGDIDYLT  101 (204)
Q Consensus        88 ----~~~il~iDeid~~~  101 (204)
                          ...+++|||+|.++
T Consensus       104 ~~~~~~kviIide~d~l~  121 (207)
T d1a5ta2         104 ARLGGAKVVWVTDAALLT  121 (207)
T ss_dssp             CTTSSCEEEEESCGGGBC
T ss_pred             cccCccceEEechhhhhh
Confidence                45699999999993

>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=98.93  E-value=8.2e-10  Score=93.01  Aligned_cols=71  Identities=17%  Similarity=0.302  Sum_probs=55.8

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhC-CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCcc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVG-KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFK   74 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~   74 (204)
                      -|+||++.|+.+.-.+..++.+...-.... -..+.++||.||||||||.+|+.||+.++.|++.+++..+.
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fT   86 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFT   86 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceee
Confidence            488999999998777877765433211111 12356799999999999999999999999999999998874

>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=98.91  E-value=2.9e-08  Score=77.16  Aligned_cols=88  Identities=13%  Similarity=0.228  Sum_probs=59.5

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCccChHHHH
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFKENMELR   80 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~~~   80 (204)
                      +++|.+...+.+.+.+......           ...++++|++|||||++|++|....   ..+++.+++..+.......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~-----------~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~   69 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCA-----------ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEA   69 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTC-----------CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHH
Confidence            4677777777766665543221           2349999999999999999998766   3467778877664443333


Q ss_pred             HHHHh-----------------cCCCeEEEEecCCccch
Q 041769           81 NMLIA-----------------TKNKSILVVGDIDYLTL  102 (204)
Q Consensus        81 ~~~~~-----------------~~~~~il~iDeid~~~~  102 (204)
                      .+|..                 ...++.|+|||+|.+..
T Consensus        70 ~lfg~~~~~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~  108 (247)
T d1ny5a2          70 ELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGELSL  108 (247)
T ss_dssp             HHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCH
T ss_pred             HhcCcccCCcCCcccccCCHHHccCCCEEEEeChHhCCH
Confidence            33321                 12457899999999833

>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=98.89  E-value=1.5e-09  Score=87.90  Aligned_cols=49  Identities=22%  Similarity=0.366  Sum_probs=36.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhcC
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .|.+|+|++..|..+.-.+.   .          +...++||+||||||||++|++++..++
T Consensus         5 ~f~~I~Gq~~~kral~laa~---~----------~~~h~vLl~G~pG~GKT~lar~~~~iLp   53 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAV---D----------PGIGGVLVFGDRGTGKSTAVRALAALLP   53 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHH---C----------GGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             ChhhccCcHHHHHHHHHHHh---c----------cCCCeEEEECCCCccHHHHHHHHHHhCC
Confidence            48899999988776532221   0          1134699999999999999999998773

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.54  E-value=2.7e-08  Score=70.94  Aligned_cols=32  Identities=38%  Similarity=0.713  Sum_probs=28.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.++|.|||||||||+++.||..++.+++..+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            45899999999999999999999999987643

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.52  E-value=1.6e-07  Score=70.49  Aligned_cols=66  Identities=14%  Similarity=0.165  Sum_probs=50.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcC------CceEEeecCCc-cChHHHHHHHHhcC------CCeEEEEecCCccch
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLN------FDVYDLELTTF-KENMELRNMLIATK------NKSILVVGDIDYLTL  102 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~------~~~~~~~~~~~-~~~~~~~~~~~~~~------~~~il~iDeid~~~~  102 (204)
                      +..++|+||||+|||++|..+++...      .+++.+.+.+- .+...++++.....      ...|++|||+|.++.
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~~   93 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQ   93 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCccccch
Confidence            45699999999999999999999772      46888876542 24566666655542      456999999999944

>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=98.50  E-value=3.8e-07  Score=70.27  Aligned_cols=36  Identities=33%  Similarity=0.329  Sum_probs=31.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      ++.++++||+|+|||++++.++...+..+..++...
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~   64 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   64 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEecc
Confidence            456999999999999999999999988887776543

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.49  E-value=3e-08  Score=72.16  Aligned_cols=34  Identities=18%  Similarity=0.122  Sum_probs=29.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .+.|+|.|||||||||++++||+.+|.+++..+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~   40 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYG   40 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeeh
Confidence            3559999999999999999999999988876543

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=98.45  E-value=4.2e-08  Score=70.80  Aligned_cols=29  Identities=24%  Similarity=0.477  Sum_probs=26.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.|||||||||+++.||+.+|.+++..
T Consensus         7 I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            88999999999999999999999988764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=98.42  E-value=5.8e-08  Score=70.35  Aligned_cols=34  Identities=26%  Similarity=0.444  Sum_probs=30.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~   71 (204)
                      +-++|.|||||||||++++|++.+|.+++.++..
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d   38 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHSD   38 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHH
Confidence            3488999999999999999999999999988754

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=98.37  E-value=1.7e-07  Score=67.64  Aligned_cols=32  Identities=19%  Similarity=0.273  Sum_probs=28.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +-|+|.||||+||||+|++|++.++.+++.++
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~   35 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCeEEee
Confidence            45889999999999999999999998887765

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=98.36  E-value=1e-07  Score=69.02  Aligned_cols=31  Identities=29%  Similarity=0.439  Sum_probs=28.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .++|.|+||+||||+++.||+.+|.+++.++
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            3788999999999999999999999998754

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=98.36  E-value=1e-07  Score=69.36  Aligned_cols=32  Identities=19%  Similarity=0.466  Sum_probs=28.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ..++|.|+||+||||+++.||+.+|.+++..+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D   34 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEehh
Confidence            34888999999999999999999999988754

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=98.33  E-value=1.7e-07  Score=67.28  Aligned_cols=28  Identities=32%  Similarity=0.616  Sum_probs=25.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      -++|.|||||||||+|+.|++.++..++
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            4889999999999999999999987654

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=98.30  E-value=2.1e-07  Score=67.04  Aligned_cols=32  Identities=31%  Similarity=0.540  Sum_probs=27.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      .-++|+|||||||||+++.|++.++...+..+
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            34788999999999999999999998776654

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.30  E-value=1.7e-07  Score=67.92  Aligned_cols=30  Identities=30%  Similarity=0.511  Sum_probs=27.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      ++|.|+||+||||+++.||+.+|.+++..+
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            677799999999999999999999988654

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=98.28  E-value=3.4e-07  Score=66.07  Aligned_cols=29  Identities=28%  Similarity=0.414  Sum_probs=25.0

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |.+..++|.|||||||||+++.|++.++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            33455999999999999999999999864

>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=98.25  E-value=4.6e-07  Score=66.28  Aligned_cols=64  Identities=16%  Similarity=0.119  Sum_probs=42.0

Q ss_pred             CCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhc-CCCeEEEEecCCcc
Q 041769           35 AWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIAT-KNKSILVVGDIDYL  100 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iDeid~~  100 (204)
                      +.+.-++++|+||+||||+++.++...+...  ++...+.....+.+.+... ..+..+++|.....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~--i~~D~~~~~~~~~~~~~~~l~~g~~vIiD~t~~~   76 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVH--VNRDTLGSWQRCVSSCQAALRQGKRVVIDNTNPD   76 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEE--EEHHHHCSHHHHHHHHHHHHHTTCCEEEESCCCS
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEE--EchHHHHHHHHHHHHHHHHHHCCCCceeeCcCCC
Confidence            3445589999999999999999998877554  4444555444443333322 34556778866543

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.21  E-value=3.1e-07  Score=66.49  Aligned_cols=24  Identities=46%  Similarity=0.847  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++++++|||||||||+++.+++.+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            469999999999999999999988

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.19  E-value=5.5e-07  Score=66.59  Aligned_cols=31  Identities=23%  Similarity=0.439  Sum_probs=27.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      |.-+++.||||+||||+++.||+.+|...+.
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            4558899999999999999999999876555

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=98.18  E-value=6.8e-07  Score=65.92  Aligned_cols=30  Identities=23%  Similarity=0.403  Sum_probs=26.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -++|.|||||||||.++.||+.+|...+..
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            377899999999999999999998776553

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.15  E-value=7.1e-07  Score=65.04  Aligned_cols=29  Identities=21%  Similarity=0.336  Sum_probs=26.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +++.|||||||||+++.||+.+|...+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            78999999999999999999998877653

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=98.14  E-value=5.5e-07  Score=66.43  Aligned_cols=31  Identities=13%  Similarity=0.265  Sum_probs=27.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      |..++|.|||||||||+++.|++.+|...+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            3458999999999999999999999888755

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.14  E-value=6.9e-07  Score=64.73  Aligned_cols=25  Identities=28%  Similarity=0.574  Sum_probs=22.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      +++.||||+|||||++.+++.++.+
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            8999999999999999999988654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.11  E-value=9.5e-07  Score=65.41  Aligned_cols=29  Identities=24%  Similarity=0.458  Sum_probs=26.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -++|.||||+||||+|+.|++.+|...+.
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            37888999999999999999999887665

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=98.10  E-value=8.5e-07  Score=63.88  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=22.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |+|.|+||+||||++++||+.++.
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            789999999999999999999853

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=98.09  E-value=1.2e-06  Score=64.20  Aligned_cols=29  Identities=21%  Similarity=0.300  Sum_probs=26.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.|||||||||+++.||+.+|...+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            78999999999999999999999877653

>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=98.08  E-value=2.9e-07  Score=67.68  Aligned_cols=26  Identities=31%  Similarity=0.581  Sum_probs=22.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -++|+|+||+||||+|+.|+..++..
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            37789999999999999999998543

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.08  E-value=1.2e-06  Score=63.96  Aligned_cols=29  Identities=28%  Similarity=0.539  Sum_probs=26.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.|||||||||+++.|++.+|...+..
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            78899999999999999999999877654

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=98.06  E-value=1.5e-06  Score=64.35  Aligned_cols=29  Identities=21%  Similarity=0.441  Sum_probs=25.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.||||+||||+++.||..+|...++.
T Consensus         9 IiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           9 AAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            78889999999999999999999776553

>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=98.04  E-value=0.00041  Score=53.78  Aligned_cols=48  Identities=19%  Similarity=0.239  Sum_probs=33.2

Q ss_pred             cccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769            4 TLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++|.+...+++.+.+.....          .....+.+||..|+|||++|+.+.+..
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~----------~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCD----------LDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTT----------SSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceeCcHHHHHHHHHHHHhccC----------CCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            456776666666665543221          112347899999999999999998763

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=1.7e-06  Score=63.77  Aligned_cols=29  Identities=24%  Similarity=0.490  Sum_probs=25.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+++.||||+||||.|+.||+.+|...+.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            37899999999999999999999876653

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.04  E-value=1.6e-06  Score=63.44  Aligned_cols=29  Identities=24%  Similarity=0.465  Sum_probs=25.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++|.||||+||||+++.||..+|...+..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            77889999999999999999998876654

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.03  E-value=1.8e-06  Score=63.78  Aligned_cols=31  Identities=19%  Similarity=0.434  Sum_probs=27.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.-++|.|||||||||.++.||+.+|...+.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            3448899999999999999999999887655

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=98.02  E-value=1.9e-06  Score=60.68  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -++++||||+||||+|+.|+....
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~~   27 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKNP   27 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC
Confidence            378999999999999999877653

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=98.00  E-value=1.9e-06  Score=62.78  Aligned_cols=28  Identities=18%  Similarity=0.271  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      ++|.||||+||||.++.|++.+|...+.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            7789999999999999999999887665

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.98  E-value=2.2e-06  Score=64.10  Aligned_cols=29  Identities=34%  Similarity=0.613  Sum_probs=25.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -+.+.|||||||||.++.||+.+|.+.++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~iS   33 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLLD   33 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            37788999999999999999999887754

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.91  E-value=3.4e-06  Score=63.25  Aligned_cols=28  Identities=25%  Similarity=0.487  Sum_probs=24.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.+.||||+||||.|+.||.++|.+.++
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4577999999999999999999988655

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.90  E-value=4.9e-06  Score=59.34  Aligned_cols=31  Identities=19%  Similarity=0.193  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      +.|+|+||||||||++.|++.+   |..+..+..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~   38 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKH   38 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEecc
Confidence            7899999999999999999886   555555443

>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=97.88  E-value=1.2e-05  Score=59.83  Aligned_cols=63  Identities=19%  Similarity=0.286  Sum_probs=41.9

Q ss_pred             hCCCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           32 VGKAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        32 ~~~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .|.|..+.++|||||+||||+++.+|++.++-.++...-+.  ..-    -+..+....++++||+...
T Consensus        48 ~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis~~N~~--s~F----~Lq~l~~~kv~l~dD~t~~  110 (205)
T d1tuea_          48 KGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNST--SHF----WLEPLTDTKVAMLDDATTT  110 (205)
T ss_dssp             HTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSS--SCG----GGGGGTTCSSEEEEEECHH
T ss_pred             cCCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEeccCCC--CCc----ccccccCCeEEEEeccccc
Confidence            46788889999999999999999999999975554332211  000    0122234457777876554

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.83  E-value=7e-06  Score=60.68  Aligned_cols=31  Identities=26%  Similarity=0.529  Sum_probs=25.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC---CceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN---FDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~   70 (204)
                      ++++|.|||||||+++.|++.++   .+...++.
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~   38 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFIGVPTREFNV   38 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcc
Confidence            78999999999999999998874   44444443

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.81  E-value=4.7e-05  Score=56.80  Aligned_cols=25  Identities=40%  Similarity=0.591  Sum_probs=22.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .-++|+||+|+||||+.+.|....+
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999999875

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.79  E-value=1.1e-05  Score=61.51  Aligned_cols=30  Identities=27%  Similarity=0.435  Sum_probs=24.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      .-+.|.||+|+|||||++++++....+--.
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~~p~sG~   56 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLETITSGD   56 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCCCCCCE
Confidence            348899999999999999999976554433

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.76  E-value=6.3e-06  Score=59.44  Aligned_cols=24  Identities=21%  Similarity=0.350  Sum_probs=21.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      -++|.|+|||||||+++.|+..++
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999999884

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.68  E-value=2.8e-05  Score=58.23  Aligned_cols=38  Identities=26%  Similarity=0.356  Sum_probs=29.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      +.-++|+||+|+||||.+--||..+   |..+..+.+..++
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R   46 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFR   46 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecccc
Confidence            4458899999999999877777766   6777777766654

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.66  E-value=1.8e-05  Score=57.99  Aligned_cols=27  Identities=30%  Similarity=0.454  Sum_probs=23.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .++|+||||+||||+++.|++..+..+
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            489999999999999999999876443

>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=97.66  E-value=1.2e-05  Score=61.65  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=23.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+.+.||+|+||||+++++++...++-
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~~p~s   60 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLEEPTE   60 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCCCCC
Confidence            3488999999999999999999775543

>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=97.63  E-value=1.8e-05  Score=59.36  Aligned_cols=37  Identities=24%  Similarity=0.410  Sum_probs=29.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~~~   73 (204)
                      +.-+.|.|.||+||||+++.|++.+    +.+++.++...+
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~i   64 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNI   64 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHH
Confidence            3448899999999999999999765    667777776544

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.62  E-value=2.1e-05  Score=57.96  Aligned_cols=26  Identities=31%  Similarity=0.431  Sum_probs=23.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      ++|+||||+||||+++.|++..+..+
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCce
Confidence            88999999999999999999886543

>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=97.60  E-value=3.5e-05  Score=58.94  Aligned_cols=27  Identities=22%  Similarity=0.426  Sum_probs=22.9

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-+.+.||+|+||||+++++++.....
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~~p~   56 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLEEPS   56 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCCCC
Confidence            348899999999999999999966543

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.59  E-value=1.1e-05  Score=58.47  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=21.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      ++|.|+||+||||+++.|++.++.
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            678999999999999999999853

>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=97.59  E-value=3.5e-05  Score=57.82  Aligned_cols=28  Identities=29%  Similarity=0.235  Sum_probs=24.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHh
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |++.+.-++|+||||+|||+++..++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5777777999999999999999888754

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=97.58  E-value=0.00014  Score=50.81  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|+||+|||||++.+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999987543

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.57  E-value=5e-05  Score=56.85  Aligned_cols=35  Identities=26%  Similarity=0.395  Sum_probs=28.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      ++|+||+|+||||.+--||..+   |..+..+++..++
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R   50 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQR   50 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccccc
Confidence            7889999999999888888777   6777777766553

>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=97.56  E-value=3.4e-05  Score=58.32  Aligned_cols=39  Identities=18%  Similarity=0.181  Sum_probs=31.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-++++||||+|||+++..+|...   +..++.++..
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            46667779999999999999999998886   5566666543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.53  E-value=5.4e-05  Score=56.89  Aligned_cols=38  Identities=21%  Similarity=0.302  Sum_probs=28.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      |.-++|+||+|+||||.+--||..+   +..+..+.+..++
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R   51 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFR   51 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccc
Confidence            3348899999999999887777666   6677776666553

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.52  E-value=4.9e-05  Score=57.02  Aligned_cols=37  Identities=22%  Similarity=0.356  Sum_probs=24.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      |.-++|+||+|+||||++--||..+   |..+..+.+...
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~   51 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVY   51 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeecc
Confidence            3448899999999999887777766   667777666554

>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=97.52  E-value=2.5e-05  Score=57.25  Aligned_cols=29  Identities=17%  Similarity=0.170  Sum_probs=25.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-++++||||+|||+++..+|...
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            56666779999999999999999998765

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.51  E-value=5.8e-05  Score=56.60  Aligned_cols=38  Identities=21%  Similarity=0.307  Sum_probs=29.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCcc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTFK   74 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~~   74 (204)
                      |.-++|+||+|+||||.+--||..+   |..+..+.+..++
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R   49 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFR   49 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccccc
Confidence            3448899999999999888888666   6777777766653

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.51  E-value=1.7e-05  Score=57.80  Aligned_cols=31  Identities=19%  Similarity=0.320  Sum_probs=24.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC---CceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN---FDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~   70 (204)
                      |.+.||+|+||||+|+.|+..++   .....++.
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~   58 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccccccceeccc
Confidence            67999999999999999999774   34444443

>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=97.50  E-value=8.6e-05  Score=56.05  Aligned_cols=29  Identities=21%  Similarity=0.331  Sum_probs=24.5

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-++++||||+|||+++-.++...
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            46666679999999999999999887654

>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=97.48  E-value=0.00014  Score=54.68  Aligned_cols=29  Identities=21%  Similarity=0.112  Sum_probs=25.0

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |++.+.-++++||||+|||+++..++...
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            57777779999999999999999998643

>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=97.48  E-value=0.00022  Score=58.36  Aligned_cols=64  Identities=30%  Similarity=0.483  Sum_probs=42.7

Q ss_pred             Cce-eEEECCCCCcHHHHHHHHHHhcC---CceEEeecC-Cc------------cChHHHHHHHHhc--CCCeEEEEecC
Q 041769           37 KHS-YFLYGPPGTGKSSLIAAMTNYLN---FDVYDLELT-TF------------KENMELRNMLIAT--KNKSILVVGDI   97 (204)
Q Consensus        37 ~~g-~ll~Gp~GtGKT~la~~la~~~~---~~~~~~~~~-~~------------~~~~~~~~~~~~~--~~~~il~iDei   97 (204)
                      +.| +++.||+|+||||++.++...++   .+++.+.-. ++            ....++...+..+  ..|.+|++.|+
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEi  236 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEI  236 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCC
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCc
Confidence            445 88999999999999999999874   445554311 11            0112333444433  47889999999


Q ss_pred             Ccc
Q 041769           98 DYL  100 (204)
Q Consensus        98 d~~  100 (204)
                      ...
T Consensus       237 Rd~  239 (401)
T d1p9ra_         237 RDL  239 (401)
T ss_dssp             CSH
T ss_pred             CCh
Confidence            977

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.46  E-value=5.2e-05  Score=54.16  Aligned_cols=31  Identities=16%  Similarity=0.255  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      +.+.|++|||||||+..|+.++   |..+..+..
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~   37 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   37 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            5699999999999999999887   566666543

>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=97.46  E-value=0.00029  Score=53.48  Aligned_cols=64  Identities=17%  Similarity=0.230  Sum_probs=43.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc-----CC----ceEEe--------ecC---CccC--------hHHHHHHHHhcCCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL-----NF----DVYDL--------ELT---TFKE--------NMELRNMLIATKNK   89 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~-----~~----~~~~~--------~~~---~~~~--------~~~~~~~~~~~~~~   89 (204)
                      +.+++.||+.+|||+++|.++-..     |.    ....+        .+.   ++..        -..+..++......
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~~~~  121 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEY  121 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHHHHHCCTT
T ss_pred             eEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHHHHhcccc
Confidence            458999999999999999988765     21    11111        111   1111        13556777777889


Q ss_pred             eEEEEecCCccc
Q 041769           90 SILVVGDIDYLT  101 (204)
Q Consensus        90 ~il~iDeid~~~  101 (204)
                      +++++||+-+-|
T Consensus       122 sLvliDE~~~gT  133 (234)
T d1wb9a2         122 SLVLMDEIGRGT  133 (234)
T ss_dssp             EEEEEESCCCCS
T ss_pred             cEEeecccccCC
Confidence            999999999873

>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=97.44  E-value=3.4e-05  Score=57.48  Aligned_cols=30  Identities=27%  Similarity=0.476  Sum_probs=24.8

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      -+.|.||+|+|||||++++++.+.+.--.+
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~~p~~G~I   58 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYLKPLKGEI   58 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCChHHHHHHHHhcccccCCCEE
Confidence            378999999999999999999876554444

>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=97.43  E-value=0.00013  Score=57.79  Aligned_cols=35  Identities=20%  Similarity=0.193  Sum_probs=29.3

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTTF   73 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~~   73 (204)
                      -+.+.|++|+||||+++.|+..+     +..+..+++.++
T Consensus        82 iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          82 IISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            47899999999999999999987     356777777665

>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=97.43  E-value=0.00016  Score=51.55  Aligned_cols=64  Identities=22%  Similarity=0.311  Sum_probs=40.6

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCc--------------------eEEeecCCccChHHHHHH-HHh-cCCCeEEEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFD--------------------VYDLELTTFKENMELRNM-LIA-TKNKSILVV   94 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~--------------------~~~~~~~~~~~~~~~~~~-~~~-~~~~~il~i   94 (204)
                      +.-++|.|+=|+|||+++|.+++.+|..                    ++-+|+=.+....++..+ +.. ....++++|
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~~~Y~~~~~~i~H~DlYRl~~~~El~~lg~~e~~~~~~i~~I  112 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVEEYNIAGKMIYHFDLYRLADPEELEFMGIRDYFNTDSICLI  112 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCEEEEEETTEEEEEEECTTCSCTTHHHHSTHHHHHSSSCEEEE
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhcccccccCCCceEEEEeeccCCceEEEEEEeccCChhhhhhCCchhHhccCCEEEE
Confidence            3348899999999999999999999642                    112222222233333322 222 245678999


Q ss_pred             ecCCcc
Q 041769           95 GDIDYL  100 (204)
Q Consensus        95 Deid~~  100 (204)
                      +..+.+
T Consensus       113 EWpe~~  118 (158)
T d1htwa_         113 EWSEKG  118 (158)
T ss_dssp             ESGGGG
T ss_pred             ECchhh
Confidence            998876

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.40  E-value=6e-05  Score=54.71  Aligned_cols=25  Identities=24%  Similarity=0.503  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +-++|.||||+||||+++.|.+.++
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999999875

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.39  E-value=8.5e-05  Score=59.25  Aligned_cols=27  Identities=19%  Similarity=0.480  Sum_probs=24.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.+++++||+|+||||++++++...+.
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CCCEEEEeeccccchHHHHHHhhhccc
Confidence            456999999999999999999998854

>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=97.38  E-value=0.00014  Score=50.08  Aligned_cols=34  Identities=26%  Similarity=0.365  Sum_probs=27.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELT   71 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~   71 (204)
                      +..++.+|+|+|||+++-.++...+..++.+-..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            3478999999999998877777778777776554

>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=97.37  E-value=7.8e-05  Score=56.93  Aligned_cols=33  Identities=18%  Similarity=0.352  Sum_probs=26.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .-+.|.||+|+|||||+++|++.+.+.--.+..
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i   61 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTV   61 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEE
Confidence            337799999999999999999988766554443

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=6.1e-05  Score=55.96  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=22.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+.+.||+|+||||+++.|+..++.
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhch
Confidence            3679999999999999999999864

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.35  E-value=6.4e-05  Score=57.11  Aligned_cols=31  Identities=19%  Similarity=0.274  Sum_probs=24.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.-+.+.||+|+|||||++++++...+.--.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG~   61 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLDKPTEGE   61 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             CCEEEEECCCCCCcchhhHhccCCCCCCcce
Confidence            3348899999999999999999976554433

>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=97.30  E-value=0.00011  Score=54.60  Aligned_cols=39  Identities=18%  Similarity=0.128  Sum_probs=28.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~   71 (204)
                      |++.+.-++|+|+||+|||+++..++...    +..+++++..
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            56666779999999999999987654322    4566665543

>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=97.29  E-value=0.0001  Score=56.28  Aligned_cols=26  Identities=31%  Similarity=0.565  Sum_probs=22.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      +.|.||+|+||||++++|++.+.+.-
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~p~~   52 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVKPDR   52 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCCc
Confidence            56889999999999999999775543

>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=97.28  E-value=7.6e-05  Score=57.04  Aligned_cols=31  Identities=26%  Similarity=0.305  Sum_probs=25.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.|.||+|+||||++++|++.....--.+
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~I   62 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLERPTEGSV   62 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCccccCCce
Confidence            3388999999999999999999776554443

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.00011  Score=53.50  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=22.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.++|+||+|+||||+++.|.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            45899999999999999999987643

>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=97.27  E-value=0.0001  Score=57.70  Aligned_cols=34  Identities=24%  Similarity=0.388  Sum_probs=26.3

Q ss_pred             HhCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           31 NVGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        31 ~~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ++.+..+.|  +.++||+|+|||||+++|++.+...
T Consensus        54 ~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~   89 (281)
T d1r0wa_          54 NINLNIEKGEMLAITGSTGSGKTSLLMLILGELEAS   89 (281)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             CeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCcCC
Confidence            334333344  8899999999999999999988543

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=97.26  E-value=0.00012  Score=53.23  Aligned_cols=30  Identities=17%  Similarity=0.263  Sum_probs=25.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.|++|.|+||+|||+++-.+... |..++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv~   43 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLIA   43 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEe
Confidence            578999999999999999888875 665544

>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=97.26  E-value=0.0003  Score=54.53  Aligned_cols=40  Identities=15%  Similarity=0.178  Sum_probs=30.2

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      |++.++-..|+||||+|||+++..++...   |..++++|.-.
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~   98 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH   98 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCc
Confidence            45656668999999999999987666655   66777776544

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=97.26  E-value=7.1e-05  Score=54.60  Aligned_cols=30  Identities=30%  Similarity=0.388  Sum_probs=24.4

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      --+.++|++|+||||+++.|. ..|.+++..
T Consensus         4 ~IIgitG~~gSGKstva~~l~-~~g~~~~~~   33 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLR-SWGYPVLDL   33 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HTTCCEEEH
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCeEEEc
Confidence            336799999999999999994 578777653

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.24  E-value=8.3e-05  Score=56.89  Aligned_cols=31  Identities=19%  Similarity=0.241  Sum_probs=25.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.-+.++||+|+|||||+++|++.+.+.--.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~   59 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFYIPENGQ   59 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCCCCCE
Confidence            3348999999999999999999988655433

>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=97.23  E-value=9.1e-05  Score=56.19  Aligned_cols=27  Identities=22%  Similarity=0.554  Sum_probs=23.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.+.||+|+||||++++|++...+.-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~~p~s   54 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFHVPDS   54 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCcCCCC
Confidence            388999999999999999999775543

>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=97.22  E-value=0.00023  Score=50.65  Aligned_cols=22  Identities=14%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -++|+|.||+|||||+..+...
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4999999999999999998764

>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=97.21  E-value=0.0003  Score=54.45  Aligned_cols=60  Identities=20%  Similarity=0.302  Sum_probs=40.1

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCCccChHHHHHHHHhcCCCeEEEEecCCcc
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTFKENMELRNMLIATKNKSILVVGDIDYL  100 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~  100 (204)
                      .+....+.|+||++||||+++.+|++.+|.-. .++-+.  ..-    -+.......++++||...-
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~-~~~~~~--~~f----~l~~l~~k~~~~~~e~~~~  160 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAHTVPFYG-CVNWTN--ENF----PFNDCVDKMVIWWEEGKMT  160 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHHHSSCEE-ECCTTC--SSC----TTGGGSSCSEEEECSCCEE
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHHHhcchh-hccccC--CCc----cccccCCCEEEEEeCCCcc
Confidence            45567799999999999999999999996532 222211  000    0233345668888987654

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.20  E-value=0.0001  Score=56.73  Aligned_cols=31  Identities=26%  Similarity=0.504  Sum_probs=25.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      .-+.++||+|+|||||++.|++.+.+.--.+
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl~~p~~G~I   72 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRFYDIDEGHI   72 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTTCCSEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhcccCCCccEE
Confidence            3488999999999999999999876554443

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=97.19  E-value=8.5e-05  Score=52.71  Aligned_cols=22  Identities=14%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|+||+|||+|++.+.+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            8999999999999999987643

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.18  E-value=0.00012  Score=56.27  Aligned_cols=28  Identities=32%  Similarity=0.422  Sum_probs=24.0

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      .-+.++||+|+|||||+++|++.+.+.-
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl~~p~~   68 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNLYQPTG   68 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCSE
T ss_pred             CEEEEECCCCCcHHHHHHHHhcccCCCc
Confidence            3488999999999999999999876543

>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=97.16  E-value=0.00079  Score=52.03  Aligned_cols=38  Identities=18%  Similarity=0.189  Sum_probs=29.8

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ++.++-+.++||||+|||+++..++...   |..++++|.-
T Consensus        54 ip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE   94 (268)
T d1xp8a1          54 IPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAE   94 (268)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             ccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECC
Confidence            4555558899999999999998888776   5667777754

>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=97.16  E-value=9.5e-05  Score=56.53  Aligned_cols=26  Identities=19%  Similarity=0.439  Sum_probs=22.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      -+.+.||+|+||||++++|++...+.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~~p~   58 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLDVPS   58 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCcCCC
Confidence            38899999999999999999976544

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.15  E-value=7.8e-05  Score=57.06  Aligned_cols=26  Identities=23%  Similarity=0.476  Sum_probs=22.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .-+.++||+|+|||||++.|++.+.+
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~~p   54 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFYQP   54 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCC
Confidence            34889999999999999999997754

>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=97.15  E-value=0.0011  Score=51.67  Aligned_cols=37  Identities=27%  Similarity=0.341  Sum_probs=27.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc------CCceEEeecCCc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL------NFDVYDLELTTF   73 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~------~~~~~~~~~~~~   73 (204)
                      |--+.+.|++||||||++..|...+      ...+..+++.++
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            3346789999999999998887665      346777776664

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.15  E-value=0.0002  Score=53.70  Aligned_cols=30  Identities=30%  Similarity=0.609  Sum_probs=23.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc--CCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL--NFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~--~~~~~~~~   69 (204)
                      +++.|++|+|||||++.|.+.+  +..+..++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            6799999999999999999766  34444443

>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=97.13  E-value=0.00016  Score=52.55  Aligned_cols=30  Identities=27%  Similarity=0.263  Sum_probs=24.7

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.|++|.|++|+|||+++-.+... |..++.
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lva   44 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFVG   44 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCceec
Confidence            578999999999999999888764 665544

>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=97.12  E-value=0.00033  Score=54.12  Aligned_cols=39  Identities=18%  Similarity=0.253  Sum_probs=29.3

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      |++.+.-+.|+||||+|||+++-.++...   |..+++++..
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE   91 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE   91 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccc
Confidence            34555558999999999999988887766   5566666643

>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=97.11  E-value=0.001  Score=50.01  Aligned_cols=64  Identities=16%  Similarity=0.212  Sum_probs=42.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-----CC----ceEEee--------cC---CccC--------hHHHHHHHHhcCCCe
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-----NF----DVYDLE--------LT---TFKE--------NMELRNMLIATKNKS   90 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-----~~----~~~~~~--------~~---~~~~--------~~~~~~~~~~~~~~~   90 (204)
                      .++++||+.+|||+++|.++-..     |.    ....+.        +.   ++..        -..+..++......+
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~~~~s  116 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATENS  116 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHCCTTE
T ss_pred             EEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccCCCCc
Confidence            48899999999999999887765     21    111111        11   1111        145567777778899


Q ss_pred             EEEEecCCccch
Q 041769           91 ILVVGDIDYLTL  102 (204)
Q Consensus        91 il~iDeid~~~~  102 (204)
                      +++|||+-.-|-
T Consensus       117 LvliDE~~~gT~  128 (224)
T d1ewqa2         117 LVLLDEVGRGTS  128 (224)
T ss_dssp             EEEEESTTTTSC
T ss_pred             EEeecccccCcc
Confidence            999999998733

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.11  E-value=0.00044  Score=48.99  Aligned_cols=21  Identities=38%  Similarity=0.664  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999988763

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.10  E-value=0.00031  Score=50.06  Aligned_cols=21  Identities=19%  Similarity=0.399  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            889999999999999998764

>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=97.08  E-value=0.00017  Score=55.64  Aligned_cols=27  Identities=19%  Similarity=0.298  Sum_probs=23.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCce
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDV   65 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~   65 (204)
                      -+.+.||+|+|||||+++|++.....-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~~p~~   56 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLEKPSE   56 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHHcCccCCC
Confidence            388999999999999999999775543

>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=97.08  E-value=0.00015  Score=55.36  Aligned_cols=32  Identities=19%  Similarity=0.317  Sum_probs=26.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      -+.|.||+|+||||++++|++.+...--.+..
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~   65 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLVRAQKGKIIF   65 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCccEEEe
Confidence            38899999999999999999988765544433

>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=97.08  E-value=0.00013  Score=54.62  Aligned_cols=28  Identities=18%  Similarity=0.148  Sum_probs=24.1

Q ss_pred             CCCCceeEEECCCCCcHHHHHHHHHHhc
Q 041769           34 KAWKHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        34 ~~~~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++.+.-++|+|+||+|||+++..+|..+
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5656669999999999999999998765

>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=97.07  E-value=0.00022  Score=51.47  Aligned_cols=30  Identities=17%  Similarity=0.245  Sum_probs=24.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      +.|++|.|+||+|||+++-.+.+. |..++.
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~li~   44 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRLVA   44 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEe
Confidence            578999999999999999887776 655443

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.06  E-value=0.00021  Score=50.95  Aligned_cols=21  Identities=19%  Similarity=0.431  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|+|+||+|||||+..+.+.
T Consensus        16 I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            999999999999999998664

>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=97.03  E-value=0.00049  Score=49.03  Aligned_cols=21  Identities=24%  Similarity=0.524  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -+++.|+||+|||+|++.+..
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            499999999999999998855

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=97.02  E-value=0.00019  Score=51.38  Aligned_cols=23  Identities=13%  Similarity=0.273  Sum_probs=19.9

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -++++|+||+|||+|++.+....
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            49999999999999999987543

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.01  E-value=0.00026  Score=52.67  Aligned_cols=30  Identities=23%  Similarity=0.189  Sum_probs=24.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~   69 (204)
                      |.|.|+.|+||||+++.|++.+   |.++..+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            5566999999999999999987   66666553

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=0.0004  Score=49.41  Aligned_cols=21  Identities=38%  Similarity=0.646  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988764

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.97  E-value=0.00022  Score=54.86  Aligned_cols=37  Identities=32%  Similarity=0.543  Sum_probs=28.0

Q ss_pred             hCCCCCce--eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           32 VGKAWKHS--YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        32 ~~~~~~~g--~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ..+..+.|  +.|.||+|+|||||+++|++.+...--.+
T Consensus        23 vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I   61 (254)
T d1g6ha_          23 VSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRV   61 (254)
T ss_dssp             ECCEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             eEEEECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCcEE
Confidence            34444444  88999999999999999999886654443

>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=96.97  E-value=0.001  Score=52.83  Aligned_cols=33  Identities=27%  Similarity=0.495  Sum_probs=25.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CC--ceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NF--DVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~--~~~~~~~~~   72 (204)
                      +.+.||||+|||||+..+++.+   |.  .++.+|+++
T Consensus        57 IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss   94 (327)
T d2p67a1          57 LGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSS   94 (327)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCce
Confidence            8899999999999999999876   33  344455443

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.96  E-value=0.00022  Score=49.61  Aligned_cols=21  Identities=24%  Similarity=0.487  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|.|+||+|||+|+..+.+.
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999874

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.95  E-value=0.00023  Score=52.67  Aligned_cols=29  Identities=28%  Similarity=0.365  Sum_probs=24.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +.++|++||||||+++.+. .+|.+++..|
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vidaD   33 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDAD   33 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEch
Confidence            5689999999999999886 5788887654

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.93  E-value=0.00025  Score=52.63  Aligned_cols=28  Identities=36%  Similarity=0.465  Sum_probs=23.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.++|++|+||||+++.+. .+|.+++..
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vida   33 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVIDA   33 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEEH
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEEc
Confidence            6789999999999999886 678877664

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.92  E-value=0.0009  Score=47.28  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.92  E-value=0.00016  Score=55.71  Aligned_cols=32  Identities=22%  Similarity=0.391  Sum_probs=25.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      +.-+.++||+|+|||||++.|++.+...--.+
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I   75 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRFYDVTSGQI   75 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTSSCCSEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcCCcccccc
Confidence            33489999999999999999999876654443

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.92  E-value=0.00051  Score=49.24  Aligned_cols=20  Identities=40%  Similarity=0.700  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=96.91  E-value=0.00055  Score=52.52  Aligned_cols=39  Identities=18%  Similarity=0.101  Sum_probs=29.4

Q ss_pred             CCCCCceeEEECCCCCcHHHHHHHHHHhc----CCceEEeecC
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLIAAMTNYL----NFDVYDLELT   71 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la~~la~~~----~~~~~~~~~~   71 (204)
                      |+..+.-+++.|+||+|||+++..++..+    |.++..+++-
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            45555558899999999999988887543    6777776643

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=96.91  E-value=0.00025  Score=49.66  Aligned_cols=22  Identities=18%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -++|+|.||+|||||++.+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999998764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.88  E-value=0.00099  Score=47.25  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998853

>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=96.88  E-value=0.00035  Score=47.45  Aligned_cols=18  Identities=28%  Similarity=0.314  Sum_probs=14.9

Q ss_pred             CceeEEECCCCCcHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la   54 (204)
                      +..+++++|+|+|||..+
T Consensus         7 ~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             TCEEEECCCTTSSTTTTH
T ss_pred             CCcEEEEcCCCCChhHHH
Confidence            455899999999999654

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.87  E-value=0.00023  Score=51.88  Aligned_cols=29  Identities=21%  Similarity=0.320  Sum_probs=24.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEE
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYD   67 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~   67 (204)
                      -|.+-|+.|+||||+++.|++.++...+.
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l~~~~~~   39 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYKNDICLL   39 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGTTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            37788999999999999999998765443

>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=96.84  E-value=0.00063  Score=54.82  Aligned_cols=19  Identities=37%  Similarity=0.674  Sum_probs=15.8

Q ss_pred             eeEEECCCCCcHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAM   57 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~l   57 (204)
                      -+++.||||||||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            3889999999999987543

>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=96.84  E-value=0.00088  Score=51.27  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..++|+|.||+||||++.+|.+.
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            45999999999999999999875

>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=96.83  E-value=0.00036  Score=55.46  Aligned_cols=33  Identities=30%  Similarity=0.474  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CC--ceEEeecCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NF--DVYDLELTT   72 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~--~~~~~~~~~   72 (204)
                      +.+.||||+|||||+..++..+   |.  .++.+|+++
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            8899999999999999999875   43  345555443

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.83  E-value=0.00093  Score=47.25  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=19.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++++|.+|+|||+|++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.001  Score=47.01  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|+..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.82  E-value=0.00099  Score=47.18  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=18.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999987754

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.0012  Score=46.80  Aligned_cols=20  Identities=35%  Similarity=0.622  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998875

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.78  E-value=0.0004  Score=51.03  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=20.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .|++.|+||+|||+|++.+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999874

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.74  E-value=0.00041  Score=49.56  Aligned_cols=21  Identities=38%  Similarity=0.718  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|+||+|||+|++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999988754

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.73  E-value=0.00051  Score=50.14  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=20.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .++|.|+||+|||||+.+|.+.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999875

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.00024  Score=53.89  Aligned_cols=23  Identities=43%  Similarity=0.687  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -+.+.||+|+|||||++++++..
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            38899999999999999999844

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.72  E-value=0.0011  Score=46.93  Aligned_cols=20  Identities=35%  Similarity=0.542  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999999875

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=96.71  E-value=0.00037  Score=49.59  Aligned_cols=21  Identities=29%  Similarity=0.566  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |.+.|+||+|||||+++|.+.
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999863

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.68  E-value=0.0016  Score=46.15  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998765

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.68  E-value=0.00035  Score=50.11  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=19.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|+|+||+|||||+.+|.+.
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999864

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.64  E-value=0.00054  Score=48.41  Aligned_cols=20  Identities=30%  Similarity=0.426  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|+||+|||+|+..+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998875

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.63  E-value=0.00094  Score=48.79  Aligned_cols=31  Identities=23%  Similarity=0.384  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      |.|-|+.|+||||+++.|++.+   |.++..+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            5678999999999999999877   667766543

>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=96.61  E-value=0.0013  Score=53.59  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=28.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      +++++.|++|+|||++++.+...+   |.+++.+|+.+
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~kg   88 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNG   88 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETT
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCh
Confidence            679999999999999987666544   77888888764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.61  E-value=0.00058  Score=48.24  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=19.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ++|.|++|+|||+|++.+...-
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999886643

>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=96.57  E-value=0.00054  Score=52.40  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=20.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.-.+|+|+||+|||+|+-.+|..+
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3447899999999999998888764

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.56  E-value=0.0011  Score=49.26  Aligned_cols=31  Identities=19%  Similarity=0.209  Sum_probs=26.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      |.|-|+.|+||||+++.|++.+......+..
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~   36 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQPNCKLLKF   36 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTTSEEEEES
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhCCEEEEE
Confidence            6788999999999999999999766555543

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.00054  Score=49.38  Aligned_cols=20  Identities=25%  Similarity=0.551  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||+|++.+..
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            88999999999999999875

>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=96.55  E-value=0.00064  Score=51.19  Aligned_cols=27  Identities=33%  Similarity=0.424  Sum_probs=22.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      .-..|.|+||+|||||+.+|.......
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            447899999999999999998765443

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00068  Score=48.43  Aligned_cols=21  Identities=38%  Similarity=0.610  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999988663

>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=96.54  E-value=0.00052  Score=49.87  Aligned_cols=20  Identities=40%  Similarity=0.539  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +.|+|+||+|||||+++|.+
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            89999999999999999985

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.00057  Score=47.86  Aligned_cols=21  Identities=38%  Similarity=0.619  Sum_probs=19.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|+||+|||||+++|.+.
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999854

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.53  E-value=0.00061  Score=48.43  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|.|++|+|||+|++.+...
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998863

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.00077  Score=47.84  Aligned_cols=21  Identities=29%  Similarity=0.581  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            889999999999999998864

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.48  E-value=0.00077  Score=47.93  Aligned_cols=20  Identities=35%  Similarity=0.630  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||+|++.+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999875

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.00071  Score=48.11  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|.|.+|+|||+|++.+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988763

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.46  E-value=0.00061  Score=53.18  Aligned_cols=35  Identities=17%  Similarity=0.314  Sum_probs=24.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCCc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTTF   73 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~~   73 (204)
                      -+.+.|++|+||||++++|.+.+   +.+...+...++
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            37899999999999999998877   455556655543

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.46  E-value=0.00073  Score=47.72  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=19.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|+||+|||+|++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.44  E-value=0.00085  Score=48.27  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=20.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHh
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..-+++.|.+|+|||+|++.+...
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            334999999999999999888764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.44  E-value=0.00077  Score=50.63  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=23.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      +.|+|+.||||||+|+.|+..+|..++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            779999999999999999998875443

>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=96.43  E-value=0.00023  Score=51.20  Aligned_cols=23  Identities=39%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      .+|+||+|+|||+++.||.-.++
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            67899999999999999998764

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.41  E-value=0.0009  Score=47.33  Aligned_cols=20  Identities=30%  Similarity=0.409  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      ++|.|.+|+|||+|++.+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.37  E-value=0.00096  Score=47.96  Aligned_cols=20  Identities=35%  Similarity=0.645  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|||||+|+..+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998876

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.36  E-value=0.00091  Score=47.83  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=19.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |.|.|.||+|||||++++.+.
T Consensus         8 I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999875

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.36  E-value=0.001  Score=46.81  Aligned_cols=21  Identities=19%  Similarity=0.270  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999988763

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.00088  Score=49.33  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|-|++|+||||+++.|++.+
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6678999999999999999887

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.33  E-value=0.00096  Score=47.13  Aligned_cols=21  Identities=29%  Similarity=0.351  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -+++.|++|+|||+|++.+..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999875

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.00097  Score=47.43  Aligned_cols=20  Identities=35%  Similarity=0.718  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998875

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.00099  Score=46.85  Aligned_cols=20  Identities=30%  Similarity=0.492  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|+|||+|++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.00098  Score=47.50  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|.+|+|||+|++.+...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3999999999999999987753

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.0011  Score=47.17  Aligned_cols=21  Identities=38%  Similarity=0.532  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|+||+|||+|+..+...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            889999999999999888763

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.30  E-value=0.0012  Score=46.88  Aligned_cols=20  Identities=30%  Similarity=0.632  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||+|++.+..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998766

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.001  Score=47.21  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=19.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |.|.|.||+|||||+++|.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999864

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=96.29  E-value=0.0011  Score=51.05  Aligned_cols=35  Identities=14%  Similarity=0.361  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHH-HHHHHhc---C---CceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLI-AAMTNYL---N---FDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la-~~la~~~---~---~~~~~~~~~~   72 (204)
                      ..+++.|+||||||+++ ..++..+   +   ..+..+..+.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn   56 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTN   56 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcH
Confidence            34889999999999854 3333332   2   3566666553

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.0011  Score=47.31  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|++|+|||+|+..+...
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999988764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.14  E-value=0.0023  Score=47.73  Aligned_cols=29  Identities=17%  Similarity=0.110  Sum_probs=24.6

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceE
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVY   66 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~   66 (204)
                      +=+.|-|+-||||||+++.|+..++...+
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            34788999999999999999999975443

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.11  E-value=0.0014  Score=47.55  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|++.+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            889999999999999988753

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.11  E-value=0.0014  Score=46.68  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|.|.+|+|||+|++.+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999988753

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=96.09  E-value=0.0015  Score=46.72  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+.+.|.+|+|||||+.++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3889999999999999999864

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.09  E-value=0.00085  Score=47.79  Aligned_cols=20  Identities=25%  Similarity=0.589  Sum_probs=8.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|.+|||||+|++.+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999987775

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.08  E-value=0.0008  Score=50.18  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      +.|-|+.|+||||+++.|++.+..
T Consensus         5 I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           5 ISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhc
Confidence            789999999999999999998853

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=96.08  E-value=0.0011  Score=47.48  Aligned_cols=21  Identities=33%  Similarity=0.488  Sum_probs=18.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      |.|.|+||+|||||+++|.+.
T Consensus         4 VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEEE
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998653

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.06  E-value=0.0018  Score=45.95  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=96.05  E-value=0.00049  Score=52.01  Aligned_cols=27  Identities=33%  Similarity=0.533  Sum_probs=19.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCc
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFD   64 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~   64 (204)
                      ...+|.|+||+|||||+.+|.......
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~~~~  124 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPELGLR  124 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-----
T ss_pred             ceEEEECCCCccHHHHHHhhccHhHhh
Confidence            347899999999999999998765443

>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=96.04  E-value=0.0011  Score=51.28  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      .+|+||+|+|||+++.||+-.++.
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            589999999999999999887653

>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=96.03  E-value=0.0014  Score=46.99  Aligned_cols=23  Identities=17%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      ..-+++.|+||+|||||++.+..
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34599999999999999988754

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.01  E-value=0.00053  Score=47.95  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.|.|.||+|||||+++|.+.
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999875

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0042  Score=47.52  Aligned_cols=36  Identities=25%  Similarity=0.246  Sum_probs=30.5

Q ss_pred             CCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           36 WKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        36 ~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      .++-+++.|-=|+||||++-++|..+   |..+..+++.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            36678899999999999888888888   7888887765

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.00  E-value=0.0017  Score=46.73  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|.+|+|||+|++.+...
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            899999999999999988763

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.99  E-value=0.0018  Score=46.48  Aligned_cols=21  Identities=19%  Similarity=0.376  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ++|.|.+|+|||+|++.+...
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999888763

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.93  E-value=0.0019  Score=46.63  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999887653

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.92  E-value=0.0014  Score=46.81  Aligned_cols=21  Identities=57%  Similarity=0.626  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.|.|.||+|||||+++|.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999653

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.91  E-value=0.00089  Score=47.63  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=17.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999877553

>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=95.79  E-value=0.0025  Score=49.50  Aligned_cols=21  Identities=14%  Similarity=0.450  Sum_probs=15.8

Q ss_pred             eeEEECCCCCcHHHHH-HHHHH
Q 041769           39 SYFLYGPPGTGKSSLI-AAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la-~~la~   59 (204)
                      .+++.|+||||||+++ ..+++
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~   47 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAY   47 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHH
Confidence            3899999999999854 33443

>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=95.79  E-value=0.0011  Score=47.07  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=19.0

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      -|.|+|.|++|||||+++|.+
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            399999999999999999865

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.66  E-value=0.0029  Score=45.58  Aligned_cols=18  Identities=33%  Similarity=0.617  Sum_probs=17.3

Q ss_pred             eEEECCCCCcHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAM   57 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~l   57 (204)
                      +++.|.+|+|||+|++.+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999988

>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=95.62  E-value=0.0038  Score=49.99  Aligned_cols=24  Identities=33%  Similarity=0.603  Sum_probs=21.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      -+++||+|+|||+++.||.-.+|.
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            579999999999999999876654

>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=95.61  E-value=0.011  Score=43.22  Aligned_cols=31  Identities=23%  Similarity=0.192  Sum_probs=25.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeec
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLEL   70 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~   70 (204)
                      .++.+|+|+|||.++-.++..++.+++.+-.
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            5678899999999999999988777666544

>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=95.45  E-value=0.004  Score=48.35  Aligned_cols=27  Identities=19%  Similarity=0.423  Sum_probs=22.5

Q ss_pred             CCCce--eEEECCCCCcHHHHHHHHHHhc
Q 041769           35 AWKHS--YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        35 ~~~~g--~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |..+|  .++.|++|+|||+++..+++..
T Consensus        39 PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          39 PIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            44444  9999999999999999999855

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.36  E-value=0.0049  Score=44.00  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=19.4

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      -+++.|++|+|||+|+..+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999988764

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.28  E-value=0.0045  Score=45.87  Aligned_cols=20  Identities=30%  Similarity=0.536  Sum_probs=18.1

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q 041769           40 YFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~   59 (204)
                      +++.|++|+|||++++.+..
T Consensus         9 illlG~~~vGKTsll~~~~~   28 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999998753

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.19  E-value=0.0052  Score=43.94  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|.+|+|||++++.+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999986654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.84  E-value=0.0067  Score=48.08  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |.|-|+-|+||||+++.|++.++.
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEECCccCCHHHHHHHHHHHhcc
Confidence            788899999999999999999853

>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=94.75  E-value=0.024  Score=42.88  Aligned_cols=36  Identities=31%  Similarity=0.384  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeecCC
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELTT   72 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~~   72 (204)
                      .+-++++|-=|+||||++-.||..+   |..+..+|+.-
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp   58 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDP   58 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            3447788999999999877776666   78888888763

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.59  E-value=0.0074  Score=44.88  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|..|+|||||++.+.+..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            7899999999999999998864

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.57  E-value=0.0095  Score=42.29  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|..|+|||++++.+...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            899999999999999887543

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

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 motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=94.56  E-value=0.015  Score=46.00  Aligned_cols=48  Identities=17%  Similarity=0.403  Sum_probs=30.4

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      +||.+++++...+.+-+.+..      .+...--.....++-||+.|+|||+.+
T Consensus        53 ~FD~vf~~~~~q~~vy~~v~~------~v~~~l~G~n~~i~aYGqtgSGKT~T~  100 (342)
T d1f9va_          53 KFDKIFDQQDTNVDVFKEVGQ------LVQSSLDGYNVCIFAYGQTGSGKTFTM  100 (342)
T ss_dssp             EESEEECTTCCHHHHHHHHHH------HHGGGGGTCCEEEEEECCTTSSHHHHH
T ss_pred             ecCeEeCCCCCHHHHHHHhhh------hhcchhcccccceeeeeccCCcccccc
Confidence            378888877666666544332      222221222345888999999999876

>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=94.52  E-value=0.014  Score=45.80  Aligned_cols=50  Identities=20%  Similarity=0.458  Sum_probs=31.0

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIA   55 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~   55 (204)
                      +||.+++++...+.+-+.+...+     +...--.....++-||+.|+|||+.+-
T Consensus        45 ~FD~vf~~~~~q~~vf~~~~~~l-----v~~~l~G~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          45 AFDRVFQSSTSQEQVYNDCAKKI-----VKDVLEGYNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHHH-----HHHHHTTCCEEEEEECSTTSSHHHHHT
T ss_pred             ECCEEECCCCCHHHHHHHHHHHH-----HHHHHcCCCcceeeecccCCCCceecc
Confidence            37888887766666644433222     111111224458999999999999863

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=94.24  E-value=0.02  Score=41.28  Aligned_cols=32  Identities=19%  Similarity=0.330  Sum_probs=26.4

Q ss_pred             eeEEECC-CCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           39 SYFLYGP-PGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        39 g~ll~Gp-~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      -+++.|- +|+|||+++-.||..+   |..+..+++
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            3788898 5999999888888877   788888764

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.20  E-value=0.025  Score=45.73  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +-.+.+.|.||+|||||+.+|.+
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            34599999999999999999975

>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=94.12  E-value=0.052  Score=41.59  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=18.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+|||+++..++...
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTC
T ss_pred             EeeccCCCCChHHHHHHHHhhh
Confidence            8899999999999987655544

>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=94.08  E-value=0.038  Score=41.31  Aligned_cols=41  Identities=15%  Similarity=0.126  Sum_probs=28.3

Q ss_pred             HHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           30 RNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        30 ~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      .++..+.+...||+|.+|+|||.++-..+...   |..+..+-+
T Consensus        69 ~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~P  112 (233)
T d2eyqa3          69 SDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVP  112 (233)
T ss_dssp             HHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECS
T ss_pred             HHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEcc
Confidence            33444556678999999999999776655554   666665543

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.00  E-value=0.011  Score=46.68  Aligned_cols=24  Identities=21%  Similarity=0.393  Sum_probs=21.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |.|-|+-|+||||+++.|++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            678899999999999999998854

>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=93.98  E-value=0.027  Score=44.66  Aligned_cols=49  Identities=27%  Similarity=0.316  Sum_probs=29.2

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      +||.+++.+...+.+-+.+...     ++...--.....++-||++|+|||+++
T Consensus        49 ~FD~vf~~~~~q~~vy~~~~~p-----lv~~~l~G~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          49 TFDRVFDMSCKQSDIFDFSIKP-----TVDDILNGYNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHH-----HHHHHTTTCCEEEEEECSTTSSHHHHH
T ss_pred             ECCeEcCCCCCHHHHHHHHHHH-----HHHHhhccCceeEEecccCCCCcceee
Confidence            3777887766555554333221     222211122345899999999999875

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

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: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=93.97  E-value=0.02  Score=44.99  Aligned_cols=50  Identities=22%  Similarity=0.340  Sum_probs=29.7

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLIA   55 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~   55 (204)
                      ||.+++++...+.+-+.+...+-. ..+. -|.  ...++-||..|+|||+.+.
T Consensus        54 fD~Vf~~~~~q~~vy~~~~~plv~-~~~~-~G~--n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          54 VDKVFDDTVDNFTVYENTIKPLII-DLYE-NGC--VCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             CSEEECTTCCHHHHHHHHTHHHHH-HHHH-HCC--EEEEEEECCTTSSHHHHHH
T ss_pred             CCeecCCCCCHHHHHHHHHHHHHH-HHHh-cCC--CeEEEeeeccccccceeee
Confidence            677887776666665443222111 1111 011  3448899999999999863

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=93.94  E-value=0.014  Score=41.44  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHHh
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      .+-+.|.|++|||||+.+|.+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            3789999999999999999864

>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=93.81  E-value=0.031  Score=39.92  Aligned_cols=21  Identities=19%  Similarity=0.422  Sum_probs=16.7

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      .+++++|+|+|||.++-.++.
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHH
Confidence            478999999999986555554

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

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 heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=93.79  E-value=0.015  Score=46.50  Aligned_cols=48  Identities=21%  Similarity=0.423  Sum_probs=29.1

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      +||.++.++...+.+-+.+...+.  ..+.    .....++-||+.|+|||+.+
T Consensus        45 ~FD~vf~~~~~q~~vy~~v~~lv~--~~l~----G~n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          45 MYDRVFDGNATQDDVFEDTKYLVQ--SAVD----GYNVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             ECSEEECTTCCHHHHHHTTTHHHH--HHHT----TCEEEEEEECSTTSSHHHHH
T ss_pred             ECCeecCCCCCHHHHHHHHHHHHH--HHhc----CCceeeeccccCCCCccccc
Confidence            377787776665555443322211  1111    22345889999999999985

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [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), mitotic kinesin eg5 [TaxId: 9606]

Probab=93.67  E-value=0.027  Score=44.43  Aligned_cols=49  Identities=24%  Similarity=0.341  Sum_probs=29.9

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      +||.+++++...+.+-+.+...+-. .++.    .....++-||+.|+|||+.+
T Consensus        50 ~FD~vf~~~~~q~~vy~~~~~~lv~-~~l~----G~n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          50 TFDMVFGASTKQIDVYRSVVCPILD-EVIM----GYNCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             ECSEEECTTCCHHHHHHHHHHHHHH-HHHT----TCEEEEEEEECTTSSHHHHH
T ss_pred             ecCEEeCCCCCHHHHHHHHHHHhHH-HHhc----cCCceEEeeeeccccceEEe
Confidence            3778887776666664443222111 1221    22345899999999999876

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=93.57  E-value=0.013  Score=46.34  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=18.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNF   63 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~   63 (204)
                      |.|-|+-|+||||+++.|+..++.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEECCcCCCHHHHHHHHHHHhCC
Confidence            678899999999999999988753

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=93.56  E-value=0.017  Score=46.19  Aligned_cols=47  Identities=19%  Similarity=0.404  Sum_probs=28.9

Q ss_pred             cccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            2 FDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         2 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      ||.++.++...+.+-+.+...+      ...--.....++-||+.|+|||+.+
T Consensus        96 FD~vf~~~~~Q~~Vy~~v~plv------~~vl~G~n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_          96 FDQVFHPLSSQSDIFEMVSPLI------QSALDGYNICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             CSEEECTTCCHHHHHTTTHHHH------HHHHTTCEEEEEEECSTTSSHHHHH
T ss_pred             CCeEECCCCCccchHHHHHHHH------HHHhcccceeEEeeccCCCccceEe
Confidence            7778777666566544333222      2111122345899999999999875

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=93.41  E-value=0.18  Score=34.30  Aligned_cols=61  Identities=16%  Similarity=0.393  Sum_probs=38.0

Q ss_pred             eEEECCCCCcHHH-HHHHHHH--hcCCceEEeecCCc-c-------------------ChHHHHHHHHhc---CCCeEEE
Q 041769           40 YFLYGPPGTGKSS-LIAAMTN--YLNFDVYDLELTTF-K-------------------ENMELRNMLIAT---KNKSILV   93 (204)
Q Consensus        40 ~ll~Gp~GtGKT~-la~~la~--~~~~~~~~~~~~~~-~-------------------~~~~~~~~~~~~---~~~~il~   93 (204)
                      -+++||=.+|||+ |++.+-+  ..|..++.++.+.- +                   ...++...+...   ....+|+
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI~   84 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIG   84 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEEE
Confidence            3688999999999 6666633  33777777664421 0                   112333333322   2567999


Q ss_pred             EecCCcc
Q 041769           94 VGDIDYL  100 (204)
Q Consensus        94 iDeid~~  100 (204)
                      |||++-+
T Consensus        85 IDE~QFf   91 (139)
T d2b8ta1          85 IDEVQFF   91 (139)
T ss_dssp             ECSGGGS
T ss_pred             echhhhc
Confidence            9999876

>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=93.36  E-value=0.057  Score=41.06  Aligned_cols=39  Identities=15%  Similarity=0.123  Sum_probs=26.4

Q ss_pred             HHhCCCCCceeEEECCCCCcHHHHHHHHHHhc---CCceEEe
Q 041769           30 RNVGKAWKHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDL   68 (204)
Q Consensus        30 ~~~~~~~~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~   68 (204)
                      .++.-+.+...||+|..|+|||.++-..+...   |..+..+
T Consensus        97 ~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m  138 (264)
T d1gm5a3          97 NDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFM  138 (264)
T ss_dssp             HHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEE
T ss_pred             HHhhccCcceeeeeccccccccHHHHHHHHHHHhcccceeEE
Confidence            33344445668999999999999776665544   5555443

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=93.33  E-value=0.013  Score=45.86  Aligned_cols=17  Identities=35%  Similarity=0.655  Sum_probs=14.8

Q ss_pred             eeEEECCCCCcHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIA   55 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~   55 (204)
                      -.+|+|.+|||||||..
T Consensus        16 valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEEECTTSCHHHHTC
T ss_pred             EEEEEccCCCCcccccc
Confidence            37999999999999764

>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=93.33  E-value=0.019  Score=44.10  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +++.|++|+|||+|+..++...
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            9999999999999999998763

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=93.32  E-value=0.04  Score=41.43  Aligned_cols=32  Identities=25%  Similarity=0.329  Sum_probs=26.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +-++|-=|+||||++-.||..+   |.++..+|+.
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            6678999999999888777777   7888888765

>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=93.29  E-value=0.013  Score=42.80  Aligned_cols=50  Identities=18%  Similarity=0.251  Sum_probs=29.0

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSS   52 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~   52 (204)
                      ||+++...+...+.+.+. +..+.. ....+..  +-.++.+++.+|+|+|||.
T Consensus         2 sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~--il~g~dvi~~a~tGsGKTl   53 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPV--AITGRDILARAKNGTGKTA   53 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHH--HHHTCCEEEECCTTSCHHH
T ss_pred             ChHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHH--HHcCCCEEEecCCcchhhh
Confidence            689998887777776543 111000 0111100  0013559999999999995

>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=93.28  E-value=0.1  Score=42.20  Aligned_cols=35  Identities=23%  Similarity=0.266  Sum_probs=30.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      +..+|.|.+|||||.++..+++..+.+++.+....
T Consensus        32 ~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n~   66 (413)
T d1t5la1          32 KHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNK   66 (413)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSSH
T ss_pred             CcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            34789999999999999999999999998887654

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

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: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=93.25  E-value=0.024  Score=45.19  Aligned_cols=49  Identities=20%  Similarity=0.377  Sum_probs=29.3

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCCCCCceeEEECCCCCcHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGKAWKHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la   54 (204)
                      +||.+++++...+.+-+.+...+-. .++.    .....++-||+.|+|||+.+
T Consensus        83 ~FD~vf~~~~~Q~~Vy~~~~~plv~-~~l~----G~n~tifaYGqTGSGKTyTm  131 (362)
T d1v8ka_          83 CFDFAFDETASNEVVYRFTARPLVQ-TIFE----GGKATCFAYGQTGSGKTHTM  131 (362)
T ss_dssp             ECSEEECTTCCHHHHHHHTTHHHHH-HHHT----TCEEEEEEEESTTSSHHHHH
T ss_pred             eCCeecCCCCCHHHHHHHHHHHHHH-HHHh----ccCceEEeeccCCCCCceee
Confidence            3778887766655554433221111 1222    22345889999999999886

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.93  E-value=0.088  Score=35.09  Aligned_cols=34  Identities=15%  Similarity=0.011  Sum_probs=26.5

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc-----CCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL-----NFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~-----~~~~~~~~~~~   72 (204)
                      .++|.|-+|+||+++|++|...+     ++++..++-.+
T Consensus         8 ~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~n   46 (122)
T d1g8fa3           8 SIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN   46 (122)
T ss_dssp             EEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCCC
Confidence            38899999999999999997766     45665565443

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=92.83  E-value=0.02  Score=44.70  Aligned_cols=16  Identities=38%  Similarity=0.684  Sum_probs=14.3

Q ss_pred             eeEEECCCCCcHHHHH
Q 041769           39 SYFLYGPPGTGKSSLI   54 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la   54 (204)
                      -.+|+|.+|||||||.
T Consensus        16 ~alfFGLSGTGKTTLs   31 (313)
T d2olra1          16 VAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             EEEEEccCCCCcccce
Confidence            3789999999999976

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=92.67  E-value=0.067  Score=38.88  Aligned_cols=30  Identities=30%  Similarity=0.388  Sum_probs=24.5

Q ss_pred             EECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           42 LYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        42 l~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      ..|-.|+||||++..+|..+   |.++..+|+.
T Consensus         7 ~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D   39 (232)
T d1hyqa_           7 ASGKGGTGKTTITANLGVALAQLGHDVTIVDAD   39 (232)
T ss_dssp             EESSSCSCHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             ECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            44889999999998888877   7788887764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=92.61  E-value=0.037  Score=42.20  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      |.+.+.|..|+|||||+.+|....|
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g   27 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTG   27 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcC
Confidence            4588999999999999999976553

>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=92.60  E-value=0.021  Score=41.23  Aligned_cols=18  Identities=28%  Similarity=0.407  Sum_probs=15.3

Q ss_pred             CceeEEECCCCCcHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la   54 (204)
                      +..+++.+|+|+|||+.+
T Consensus        40 ~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CSCEEEECSSHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHH
Confidence            345899999999999875

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.21  E-value=0.042  Score=42.13  Aligned_cols=25  Identities=12%  Similarity=0.145  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.+.+.|..|+|||||+.++....|
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            5689999999999999999987664

>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=92.13  E-value=0.05  Score=40.17  Aligned_cols=34  Identities=32%  Similarity=0.420  Sum_probs=22.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc---CCceEEeec
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL---NFDVYDLEL   70 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~   70 (204)
                      ++.+++.+|+|+|||.++-..+-.+   |..++.+-+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            4559999999999998655444332   445555443

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=92.10  E-value=0.027  Score=44.05  Aligned_cols=16  Identities=38%  Similarity=0.690  Sum_probs=14.5

Q ss_pred             eeEEECCCCCcHHHHH
Q 041769           39 SYFLYGPPGTGKSSLI   54 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la   54 (204)
                      -.+|+|-+|||||||.
T Consensus        16 ~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEEECCTTSSHHHHH
T ss_pred             EEEEEccCCCCcccce
Confidence            3789999999999987

>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=92.09  E-value=0.029  Score=41.13  Aligned_cols=48  Identities=19%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHh-----HHHHHHhCCCCCceeEEECCCCCcHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKR-----KEFYRNVGKAWKHSYFLYGPPGTGKSSL   53 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~~~~~~g~ll~Gp~GtGKT~l   53 (204)
                      +|+++...+...+.+.+.   -+..     ...+..  +-.++.+++.+|+|||||..
T Consensus        11 sF~~l~l~~~l~~~L~~~---g~~~pt~iQ~~aip~--il~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_          11 KFDDMELDENLLRGVFGY---GFEEPSAIQQRAIMP--IIEGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             CGGGGTCCHHHHHHHHHH---TCCSCCHHHHHHHHH--HHTTCCEEEECCTTSSHHHH
T ss_pred             ChhhCCCCHHHHHHHHHC---CCCCCCHHHHHHHHH--HHcCCCEEeecccccchhhh
Confidence            588887776665555321   1111     111111  01245599999999999983

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=92.01  E-value=0.071  Score=40.47  Aligned_cols=32  Identities=25%  Similarity=0.315  Sum_probs=25.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +.++|-=|+||||++-.||..+   |..+..+|+.
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~D   39 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCD   39 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            5579999999999766666555   8888888765

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=91.97  E-value=0.1  Score=37.87  Aligned_cols=32  Identities=25%  Similarity=0.341  Sum_probs=25.7

Q ss_pred             eEEE-CCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLY-GPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~-Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      +-++ +-.|+||||++-.||..+   |.++..+|+.
T Consensus         5 Iav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            4455 778999999988888877   7888888754

>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=91.95  E-value=0.1  Score=39.50  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhc
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      -++++|-|.+||||++.+|.+.-
T Consensus       114 ~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         114 RALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEEecCccchhhhhhhhhccc
Confidence            48999999999999999999843

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

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: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=91.68  E-value=0.064  Score=40.64  Aligned_cols=18  Identities=28%  Similarity=0.324  Sum_probs=15.0

Q ss_pred             CCCceeEEECCCCCcHHH
Q 041769           35 AWKHSYFLYGPPGTGKSS   52 (204)
Q Consensus        35 ~~~~g~ll~Gp~GtGKT~   52 (204)
                      ..++.+++.+|+|+|||+
T Consensus         7 ~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             STTCEEEECCCTTSSTTT
T ss_pred             hcCCcEEEEECCCCCHHH
Confidence            345668999999999995

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=91.43  E-value=0.043  Score=42.21  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.++|-|.+|||||..++.+.
T Consensus        13 iGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          13 TGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            889999999999999999864

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.39  E-value=0.075  Score=38.01  Aligned_cols=30  Identities=20%  Similarity=0.171  Sum_probs=23.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEee
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLE   69 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~   69 (204)
                      +|+.|+..+|||.+|..++...+..+|..+
T Consensus         2 iLVtGGarSGKS~~AE~l~~~~~~~~YiAT   31 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGDAPQVLYIAT   31 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSCSSEEEEEC
T ss_pred             EEEECCCCccHHHHHHHHHhcCCCcEEEEc
Confidence            689999999999999999876554444433

>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=91.38  E-value=0.03  Score=40.87  Aligned_cols=51  Identities=16%  Similarity=0.267  Sum_probs=28.5

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSSL   53 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~l   53 (204)
                      +|+++...++..+.+.+. +..+.. ....+..  +-.++.+++..|+|||||..
T Consensus         2 ~F~dl~L~~~l~~~l~~~g~~~pt~iQ~~aip~--il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ--AILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHH--HHTTCCEEEECCTTSCHHHH
T ss_pred             CccccCcCHHHHHHHHHCCCCCCCHHHHHHHHH--HHcCCCeEEEeccccccccc
Confidence            588998887666665432 110000 0111111  11245699999999999963

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=91.29  E-value=0.047  Score=42.24  Aligned_cols=21  Identities=33%  Similarity=0.422  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +.|+|-|.+|||||..+|.+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            679999999999999999664

>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=91.23  E-value=0.047  Score=39.70  Aligned_cols=58  Identities=16%  Similarity=0.181  Sum_probs=31.1

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHHHHHHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~la~~la~   59 (204)
                      +|+++...+...+.+.+. +..+.. ....+... +..+..+++..|+|+|||...-..+-
T Consensus         5 sf~~l~l~~~l~~~l~~~g~~~pt~iQ~~~ip~~-l~g~~d~iv~a~TGsGKT~~~~l~~~   64 (208)
T d1hv8a1           5 NFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLF-LNDEYNIVAQARTGSGKTASFAIPLI   64 (208)
T ss_dssp             CGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHHH-HHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             CHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHH-HcCCCCeeeechhcccccceeecccc
Confidence            688887776666655332 100000 11111110 11123588999999999986644443

>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=91.19  E-value=0.058  Score=41.51  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=18.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHh
Q 041769           40 YFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~   60 (204)
                      +++.|++|+|||+++..++..
T Consensus        71 ~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          71 ELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CEEEESTTSSHHHHHHHHHHH
T ss_pred             EEeecCCCCChHHHHHHHHHh
Confidence            899999999999998877654

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=91.08  E-value=0.074  Score=39.11  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +-+.|.|++|||||+.+|.+..
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhhc
Confidence            7789999999999999998754

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=90.86  E-value=0.12  Score=44.80  Aligned_cols=25  Identities=28%  Similarity=0.553  Sum_probs=21.9

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...+++.|.+|+|||...+.+.+.+
T Consensus       125 nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         125 NQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEeCCCCCCHHHHHHHHHHHH
Confidence            4569999999999999998888876

>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=90.77  E-value=0.035  Score=40.85  Aligned_cols=50  Identities=14%  Similarity=0.164  Sum_probs=27.8

Q ss_pred             CcccccCChhHHHHHHHHHHHHHHhHHHHHHhCC---CCCceeEEECCCCCcHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDDLERFVKRKEFYRNVGK---AWKHSYFLYGPPGTGKSSL   53 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~~~~g~ll~Gp~GtGKT~l   53 (204)
                      +|+++...+...+.+.+.   -+..+..+....+   -.++.++...|+|+|||..
T Consensus        13 sF~~l~L~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTla   65 (218)
T d2g9na1          13 SFDDMNLSESLLRGIYAY---GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT   65 (218)
T ss_dssp             CGGGSCCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHH
T ss_pred             CHHHCCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhh
Confidence            588887776666665322   1111100111111   1135699999999999974

>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=90.68  E-value=0.023  Score=41.25  Aligned_cols=51  Identities=14%  Similarity=0.153  Sum_probs=28.4

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSSL   53 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~l   53 (204)
                      +|+++...+...+.+.+. +..+.. ....+..+  -.++.+++..|+|||||..
T Consensus         2 ~F~~l~L~~~l~~~l~~~g~~~pt~iQ~~aip~~--l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_           2 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGA--LRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             CGGGSCCCHHHHHHHHHTTCCSCCHHHHHHHHHH--HHTCCEEEECCSSHHHHHH
T ss_pred             ccccCCcCHHHHHHHHHCCCCCCCHHHHHHHHHH--HCCCCeEeeccccccccee
Confidence            588888887666665431 100000 11111110  1135599999999999973

>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=90.54  E-value=0.22  Score=40.04  Aligned_cols=34  Identities=26%  Similarity=0.268  Sum_probs=30.2

Q ss_pred             eeEEECCCCCcHHHHHHHHHHhcCCceEEeecCC
Q 041769           39 SYFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTT   72 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~   72 (204)
                      ...+.|.+|+|||.++.++++..+.+++.+....
T Consensus        30 ~~~L~GlsgS~ka~~~A~l~~~~~rp~LvVt~~~   63 (408)
T d1c4oa1          30 FVTLLGATGTGKTVTMAKVIEALGRPALVLAPNK   63 (408)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCCEEEEESSH
T ss_pred             cEEEecCCCCHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            3789999999999999999999999998886554

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

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: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=90.37  E-value=0.13  Score=44.38  Aligned_cols=25  Identities=20%  Similarity=0.481  Sum_probs=22.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...+++.|.+|+|||+.++.+.+.+
T Consensus        86 ~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          86 NQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3469999999999999999988876

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.18  E-value=0.076  Score=38.53  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=19.8

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+.+.|-+++|||||+.+|...
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCcHHHHHHHHHHH
Confidence            45889999999999999999654

>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=90.02  E-value=0.056  Score=39.91  Aligned_cols=50  Identities=20%  Similarity=0.294  Sum_probs=27.9

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSS   52 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~   52 (204)
                      +|+++...+...+.+.+. +..... ....+..  +-.++.++...|+|||||.
T Consensus        18 sF~~l~L~~~l~~~L~~~g~~~pt~IQ~~aIp~--il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          18 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQ--IIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             SGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHH--HHTTCCEEEECCTTSSHHH
T ss_pred             CHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHH--HHCCCCeEEEcCcchhhhh
Confidence            588888776666655432 110000 0111111  0124569999999999996

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

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: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=89.97  E-value=0.14  Score=44.80  Aligned_cols=25  Identities=28%  Similarity=0.507  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...+++.|.+|+|||..++.+.+.+
T Consensus       121 nQ~IiisGESGaGKTe~~K~il~yL  145 (789)
T d1kk8a2         121 NQSCLITGESGAGKTENTKKVIMYL  145 (789)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4569999999999999988887766

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=89.95  E-value=0.14  Score=44.87  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +..+++.|.+|+|||...+.+.+.+
T Consensus       123 ~QsIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2         123 NQSILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3469999999999999888777766

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=89.78  E-value=0.16  Score=43.83  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.0

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      ...|++.|.+|+|||+..+.+.+++
T Consensus        91 ~Q~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          91 DQSILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4569999999999999988888876

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=89.44  E-value=0.18  Score=43.72  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=21.8

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +..+++.|.+|+|||...+.+.+.+
T Consensus        94 ~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          94 NQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4569999999999999988888765

>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=89.20  E-value=0.04  Score=40.07  Aligned_cols=50  Identities=18%  Similarity=0.197  Sum_probs=27.7

Q ss_pred             CcccccCChhHHHHHHHH-HHHHHH-hHHHHHHhCCCCCceeEEECCCCCcHHH
Q 041769            1 TFDTLAMDSNMKQMIMDD-LERFVK-RKEFYRNVGKAWKHSYFLYGPPGTGKSS   52 (204)
Q Consensus         1 ~~~~~~~~~~~~~~l~~~-~~~~~~-~~~~~~~~~~~~~~g~ll~Gp~GtGKT~   52 (204)
                      +|+++...++..+.+.+. +..+.. ....+..+  -.++.+++..|+|||||.
T Consensus         4 ~F~~l~L~~~l~~~l~~~g~~~pt~iQ~~aip~i--l~g~dvl~~a~TGsGKTl   55 (206)
T d1veca_           4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIA--LSGRDILARAKNGTGKSG   55 (206)
T ss_dssp             SGGGSCCCHHHHHHHHTTTCCSCCHHHHHHHHHH--HTTCCEEEECCSSSTTHH
T ss_pred             ChhccCcCHHHHHHHHHCCCCCCCHHHHHHHHHH--HcCCCEEeeccCcccccc
Confidence            588887776665555332 111000 11111111  124569999999999996

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=87.87  E-value=0.16  Score=38.42  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.|+|-|.+|||||..++.+.-
T Consensus         5 ~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           5 CGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
Confidence            7899999999999999998643

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=87.66  E-value=0.13  Score=39.02  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=20.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.++|..++|||||+.+|.+.-
T Consensus        29 ivvvG~~SsGKSsliNaLlg~~   50 (299)
T d2akab1          29 IAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             EEEEEBTTSCHHHHHHHHHTSC
T ss_pred             EEEEcCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998744

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=87.55  E-value=0.14  Score=39.12  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=20.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      +.++|..++|||||+.+|.+.-
T Consensus        27 ivVvG~~ssGKSSliNaLlG~~   48 (306)
T d1jwyb_          27 IVVVGSQSSGKSSVLENIVGRD   48 (306)
T ss_dssp             EEEEECSSSSHHHHHHHHHTSC
T ss_pred             EEEEeCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998744

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.51  E-value=0.27  Score=33.07  Aligned_cols=32  Identities=16%  Similarity=0.296  Sum_probs=21.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc---CCceEEeecC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL---NFDVYDLELT   71 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~---~~~~~~~~~~   71 (204)
                      -+++||=.+|||+-+-..++.+   |..++.++.+
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp~   39 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA   39 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEET
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCcEEEEecc
Confidence            4678999999999443333333   6777777654

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=87.37  E-value=0.19  Score=35.81  Aligned_cols=32  Identities=22%  Similarity=0.108  Sum_probs=22.3

Q ss_pred             CceeEEECCCCCcHHHHHHHHHHhcCCceEEe
Q 041769           37 KHSYFLYGPPGTGKSSLIAAMTNYLNFDVYDL   68 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la~~la~~~~~~~~~~   68 (204)
                      ++.+++.-|+|+|||..............+.+
T Consensus        40 g~~vlv~apTGsGKT~~~~~~~~~~~~~~~~v   71 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQIPALLLNGLTVVV   71 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHSSSEEEEE
T ss_pred             CCCEEEEcCCCCCCcchhhhhhhhccCceEEe
Confidence            34599999999999987765555444444443

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.22  E-value=0.16  Score=40.60  Aligned_cols=28  Identities=21%  Similarity=0.223  Sum_probs=19.1

Q ss_pred             CCCCCceeEEECCCCCcHHHHH-HHHHHh
Q 041769           33 GKAWKHSYFLYGPPGTGKSSLI-AAMTNY   60 (204)
Q Consensus        33 ~~~~~~g~ll~Gp~GtGKT~la-~~la~~   60 (204)
                      ..|....+++.+..|||||+++ .-+++.
T Consensus        12 ~~p~~g~~lv~A~AGsGKT~~l~~r~~~l   40 (485)
T d1w36b1          12 RLPLQGERLIEASAGTGKTFTIAALYLRL   40 (485)
T ss_dssp             GCCCSSCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEEcCchHHHHHHHHHHHHH
Confidence            3454455888999999999854 334443

>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090]}

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: Mouse (Mus musculus), kif1a [TaxId: 10090]

Probab=87.22  E-value=0.22  Score=39.04  Aligned_cols=18  Identities=39%  Similarity=0.682  Sum_probs=15.6

Q ss_pred             CceeEEECCCCCcHHHHH
Q 041769           37 KHSYFLYGPPGTGKSSLI   54 (204)
Q Consensus        37 ~~g~ll~Gp~GtGKT~la   54 (204)
                      ...++-||+.|+|||+.+
T Consensus        87 n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          87 NVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             CEEEEEECSTTSSHHHHH
T ss_pred             CceeeeeccCCCCCceee
Confidence            345899999999999986

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.13  E-value=0.15  Score=38.84  Aligned_cols=25  Identities=24%  Similarity=0.183  Sum_probs=20.6

Q ss_pred             Cce-eEEECCCCCcHHHHHHHHHHhc
Q 041769           37 KHS-YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        37 ~~g-~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      |.. |.+.||.+||||+|+..+.+..
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            443 6689999999999999988754

>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=85.55  E-value=0.52  Score=35.65  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=17.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHhc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYL   61 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~   61 (204)
                      .++.-|.|+|||.++-++++.+
T Consensus       131 ~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         131 RILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHH
T ss_pred             ceeEEEcccCccHHHHHHHHHh
Confidence            5667799999999888777544

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.76  E-value=0.25  Score=38.75  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=21.7

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHhcC
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      |.+.+.|..|+|||||+.+|....|
T Consensus        18 RNI~iiGhvd~GKTTL~d~Ll~~~g   42 (341)
T d1n0ua2          18 RNMSVIAHVDHGKSTLTDSLVQRAG   42 (341)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHB
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHCC
Confidence            5699999999999999999976553

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=83.62  E-value=0.41  Score=34.98  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcC
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLN   62 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~   62 (204)
                      +.+.|-..+|||||+.+|....|
T Consensus        12 i~viGHVd~GKSTL~~~Ll~~~g   34 (222)
T d1zunb3          12 FLTCGNVDDGKSTLIGRLLHDSK   34 (222)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcC
Confidence            78899999999999999987765

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=82.80  E-value=0.43  Score=34.03  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+.+.|....|||||+.+|.+.
T Consensus         9 ini~iiGhVd~GKSTL~~~L~~~   31 (205)
T d2qn6a3           9 VNIGVVGHVDHGKTTLVQAITGI   31 (205)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSC
T ss_pred             eEEEEEEccCCcHHHHHHHHHhh
Confidence            35899999999999999999763

>d2axpa1 c.37.1.1 (A:2-165) Hypothetical protein YorR {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: Nucleotide and nucleoside kinases
domain: Hypothetical protein YorR
species: Bacillus subtilis [TaxId: 1423]

Probab=82.06  E-value=1.6  Score=28.16  Aligned_cols=60  Identities=17%  Similarity=0.223  Sum_probs=43.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHhcCCceEEeecCCc--cChHHHHHHHHhcCCCeEEEEecCCc
Q 041769           40 YFLYGPPGTGKSSLIAAMTNYLNFDVYDLELTTF--KENMELRNMLIATKNKSILVVGDIDY   99 (204)
Q Consensus        40 ~ll~Gp~GtGKT~la~~la~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~il~iDeid~   99 (204)
                      +++-||.-+-||+.+..+.+++..+++.-+--.+  .+...+-+.|.+.....-++||-+-.
T Consensus         3 iilegpdccfkstvaaklskelkypiikgssfelaksgneklfehfnkladednviidrfvy   64 (164)
T d2axpa1           3 IILEGPDCCFKSTVAAKLSKELKYPIIKGSSFELAKSGNEKLFEHFNKLADEDNVIIDRFVY   64 (164)
T ss_dssp             EEEECCSSSCHHHHHHHHHHHHTCCEEECCCHHHHHHCHHHHHHHHHHHTTCCSEEEESCHH
T ss_pred             EEEeCCchhhHHHHHHHHHhhhcCceecCchhhhhhccCHHHHHHHHhhccccceeeehhhh
Confidence            6788999999999999999999999876433333  24456667777776555566665433

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=80.96  E-value=0.59  Score=33.34  Aligned_cols=23  Identities=30%  Similarity=0.294  Sum_probs=20.1

Q ss_pred             ceeEEECCCCCcHHHHHHHHHHh
Q 041769           38 HSYFLYGPPGTGKSSLIAAMTNY   60 (204)
Q Consensus        38 ~g~ll~Gp~GtGKT~la~~la~~   60 (204)
                      ..+.+.|-++.|||||+.+|.+.
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~~   26 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITKI   26 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Confidence            45889999999999999999764

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=80.51  E-value=0.56  Score=33.02  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=19.1

Q ss_pred             eeEEECCCCCcHHHHHHHHHH
Q 041769           39 SYFLYGPPGTGKSSLIAAMTN   59 (204)
Q Consensus        39 g~ll~Gp~GtGKT~la~~la~   59 (204)
                      .+.+.|-+..|||||+.+|.+
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            478999999999999999976