Citrus Sinensis ID: 035603

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-
Protein Sequence
MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELKAEEANGSIAKGNASN
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcccccEEEEEEEEccccccccHHHHHHHHHHcccccccccccccccccccccccccccEEEEEEEcEEccccccccccccccccEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEcccccccccccEEcccccccccccccccHHHHHHHHHHHHHHHccHHHHHHHcccccccEEEEccccccHHHHHHHHHcccccEEEEEEcccccccHHHHHHHHcccccccccccHHHHHHHHcccccccccccEEEEEEccccccccccccccccccEEEEcccccHHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccEEEEEEEccccccccHHHHHHHHHHHHHHcccccccEEEEEcccccEEEEEEccEEEEEEEEEEccccccccccccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEccccccccccccEEEcccccccHHHHcccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccEEEEccccccHHHHHHHHHHHccccEEEEEEcEccccHHHHHHHHccccccccccEEEHHHHHHHccHHccccccEEEEEEcccHHcccHHHcccccccEEEEEccccHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mmgetwgslGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYefssnnflrnKAYSEIQSYLSgreetslhasrfkaddyeevsdeyKGVRVWWVlgkkvprtpvvyfypgsyderhYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLyknvpcqawyekkwshvyfehpatfDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRgyllfgppgtgkSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDIsskkkksnVTLSGLLNCIGglwstcggeriIVFTtnhvdkldpalirrgrmdkhiempyCCFEAFKVLAKNYLEIESHELFHEIGSllgetditpadvaenlmpksdeddaGTCLKNLIEALKAAKEKAKKNAGEEAELKAEeangsiakgnasn
Flexible Loop (DISEMBL)
mmgetwgsLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRvwwvlgkkvprtpvVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIavrnrqrklYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKdlikftegkeyYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFttnhvdkldpaLIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNageeaelkaeeangsiakgnasn
Low Complexity Region (SEG)
MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASkkkeaikkdlikFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTClknliealkaakekakknageeaelkaeeanGSIAKGNASN
Disordered region (IsUnstruct)
*****WGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLS***********FKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN********************TLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITP******************CLKNLI************************************
Disordered Region (DISOPRED)
***ETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGRE****************VSDEYKGVRVWWVLGKK*************YDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKW*********TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE*NNEL***************VTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEA**********************************
Disordered Region (DISEMBL)
********LGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKA*******************************
Disordered Region (DISPRO)
MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKA**************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGSIAKGNASN
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	431	2.2.26 [Sep-21-2011]
Q9P6Q3	449	Probable mitochondrial ch	yes	no	0.327	0.314	0.380	2e-20
P32839	456	Mitochondrial chaperone B	yes	no	0.494	0.467	0.304	2e-19
Q9CZP5	418	Mitochondrial chaperone B	yes	no	0.515	0.531	0.293	8e-19
Q54DY9	458	Probable mitochondrial ch	no	no	0.438	0.412	0.310	1e-18
Q5E9H5	419	Mitochondrial chaperone B	yes	no	0.512	0.527	0.284	2e-18
Q9Y276	419	Mitochondrial chaperone B	yes	no	0.515	0.529	0.289	3e-18
Q54HY8	421	Probable mitochondrial ch	no	no	0.424	0.434	0.309	1e-17
Q7ZTL7	419	Mitochondrial chaperone B	N/A	no	0.545	0.560	0.290	1e-17
Q7ZV60	420	Mitochondrial chaperone B	yes	no	0.464	0.476	0.293	2e-17
O18413	405	26S protease regulatory s	no	no	0.419	0.446	0.281	2e-10

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

 Score =  100 bits (249), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 64/168 (38%), Positives = 93/168 (55%), Gaps = 27/168 (16%)

Query: 186 FEHPAT---FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKST 242
           F HP +     ++ + S  K+ I  D+  F    ++Y   G  ++RGYLL+GPPG+GK++
Sbjct: 198 FGHPRSKRMLSSVVLESNVKKMITDDVHDFLRNSQWYDTRGIPYRRGYLLYGPPGSGKTS 257

Query: 243 MIAAMANCLNYDVYDLELT----SVENNNELRS--------LLVDISSK---KKKS---- 283
            + A+A  L+YD+  L L     + +  N L S        LL D+ S    +++S    
Sbjct: 258 FLYALAGELDYDICVLNLAEKGLTDDRLNHLLSNVPPKAVVLLEDVDSAFQGRERSGEVG 317

Query: 284 ---NVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMD 328
              NVT SGLLN + G+  T   ERII  TTNH +KLDPAL+R GR+D
Sbjct: 318 FHANVTFSGLLNALDGV--TSSDERIIFMTTNHPEKLDPALVRPGRVD 363

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 = 97.4 bits (241), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 80/263 (30%), Positives = 123/263 (46%), Gaps = 50/263 (19%)

Query: 132 TLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPAT 191
           T+T    YR+       + +L E K IA++  + K          +  +W    F  P  
Sbjct: 171 TVTLTTLYRD---KHLFDDILNEAKDIALKTTEGKTV----IYTSFGPEWRK--FGQPKA 221

Query: 192 ---FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
                ++ + S  KE I  D+  F +  ++Y+  G  ++RGYLL+GPPG+GK++ I A+A
Sbjct: 222 KRMLPSVILDSGIKEGILDDVYDFMKNGKWYSDRGIPYRRGYLLYGPPGSGKTSFIQALA 281

Query: 249 NCLNYDV----------YDLELTSVENNNELRSLLV--DISSKKKK----------SNVT 286
             L+Y++           D  L  + NN   RS+L+  DI +   K          S+VT
Sbjct: 282 GELDYNICILNLSENNLTDDRLNHLMNNMPERSILLLEDIDAAFNKRSQTGEQGFHSSVT 341

Query: 287 LSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAK 346
            SGLLN + G+  T   E I   TTNH +KLD A++R GR+D            +KV   
Sbjct: 342 FSGLLNALDGV--TSSEETITFMTTNHPEKLDAAIMRPGRID------------YKVFVG 387

Query: 347 NYLEIESHELFHEIGSLLGETDI 369
           N    +  ++F +     GETDI
Sbjct: 388 NATPYQVEKMFMKF--YPGETDI 408

Essential for the expression of the Rieske iron-sulfur protein.

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

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

 Score = 95.5 bits (236), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 76/259 (29%), Positives = 122/259 (47%), Gaps = 37/259 (14%)

Query: 151 VLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKD 208
           +LEE +A+A++  + K  +Y  V  + W  + + +     P   D++ +     + I KD
Sbjct: 150 ILEEARALALQQEEGKTVMYTAVGSE-W--RTFGYPRRRRP--LDSVVLQQGLADRIVKD 204

Query: 209 LIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---------- 258
           + +F +  ++Y   G  ++RGYLL+GPPG GKS+ I A+A  L + +  L          
Sbjct: 205 IREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDD 264

Query: 259 ---ELTSVENNNEL------------RSLLVDISSKKKK-SNVTLSGLLNCIGGLWSTCG 302
               L SV     L            R L V+   K +    +T SGLLN + G+ ST  
Sbjct: 265 RLNHLLSVAPQQSLVLLEDVDAAFLSRDLAVENPIKYQGLGRLTFSGLLNALDGVASTEA 324

Query: 303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGS 362
             RI+  TTN++D+LDPALIR GR+D    + YC       + + +   ++  L      
Sbjct: 325 --RIVFMTTNYIDRLDPALIRPGRVDLKEYVGYCSHWQLTQMFQRFYPGQAPSLAENFAE 382

Query: 363 --LLGETDITPADVAENLM 379
             L   ++I+PA V    M
Sbjct: 383 HVLKATSEISPAQVQGYFM 401

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

 Score = 94.4 bits (233), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 77/248 (31%), Positives = 121/248 (48%), Gaps = 59/248 (23%)

Query: 142 LITGEYVNQ-VLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYFEHPATFDTLAMA 198
           L TG  V Q ++EE K +A+   + K  +Y ++    W  +++ H   + P +  ++ + 
Sbjct: 158 LGTGRQVFQNLIEEAKEMALEKEEGKTLIYTSMGTD-W--RRFGHPRRKRPIS--SVILD 212

Query: 199 SKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL 258
             K E I +D+ KF    ++Y   G  ++RGYLL+GPPGTGKS+ I A+A  L   +  L
Sbjct: 213 KGKSELIIQDVKKFLNNSDWYNDRGIPYRRGYLLYGPPGTGKSSFITALAGELQLSICIL 272

Query: 259 ELT--SVENN--NEL------RSLLV-------------DISSKKKKSN----------- 284
            L   SV +   N+L      RS+++             D+S+K   +N           
Sbjct: 273 NLAGKSVSDTSLNQLLATAPQRSIILLEDIDSAIQTGNHDLSAKSNSANAPSISSGGLQY 332

Query: 285 ---------------VTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDK 329
                          +T SGLLN + G+ ++ G  RI+  TTNH++KLD  LIR GR+D 
Sbjct: 333 QGYYGNPSVSSGGSALTFSGLLNALDGVAASEG--RILFMTTNHLEKLDKVLIRPGRVDL 390

Query: 330 HIEMPYCC 337
            IE+  C 
Sbjct: 391 QIEIGLCS 398

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

Dictyostelium discoideum (taxid: 44689)

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

 Score = 94.0 bits (232), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 74/260 (28%), Positives = 120/260 (46%), Gaps = 39/260 (15%)

Query: 151 VLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKD 208
           +LEE + +A++  + K  +Y  V  + W  + + +     P   +++ +     E I +D
Sbjct: 150 ILEEARELALQQEEGKTVMYTAVGSE-W--RPFGYPRRRRP--LNSVVLEQGVTERIVRD 204

Query: 209 LIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---------- 258
           + +F +  ++Y   G  ++RGYLL+GPPG GKS+ I A+A  L + +  L          
Sbjct: 205 IREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGELQHSICLLSLTDSSLSDD 264

Query: 259 ---ELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTC 301
               L SV     L  LL D+ +               +    +T SGLLN + G+ ST 
Sbjct: 265 RLNHLLSVAPQQSL-VLLEDVDAAFLSRDLAAENPIKYQGLGRLTFSGLLNALDGVASTE 323

Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIG 361
              RI+  TTNH+D+LDPALIR GR+D    + +C       + + +   ++  L     
Sbjct: 324 A--RIVFMTTNHIDRLDPALIRPGRVDMKEYVGHCSRWQLTQMFQRFYPGQATSLAENFA 381

Query: 362 S--LLGETDITPADVAENLM 379
              L   T I+PA V    M
Sbjct: 382 DRVLQATTQISPAQVQGYFM 401

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

Bos taurus (taxid: 9913)

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

 Score = 93.6 bits (231), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 75/259 (28%), Positives = 119/259 (45%), Gaps = 37/259 (14%)

Query: 151 VLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKD 208
           +LEE + +A++  + K  +Y  V  + W  + + +     P   +++ +     + I +D
Sbjct: 150 ILEEARELALQQEEGKTVMYTAVGSE-W--RPFGYPRRRRP--LNSVVLQQGLADRIVRD 204

Query: 209 LIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---------- 258
           + +F +  ++Y   G  ++RGYLL+GPPG GKS+ I A+A  L + +  L          
Sbjct: 205 VQEFIDNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDD 264

Query: 259 ---ELTSVENNNEL------------RSLLVDISSK-KKKSNVTLSGLLNCIGGLWSTCG 302
               L SV     L            R L V+   K +    +T SGLLN + G+ ST  
Sbjct: 265 RLNHLLSVAPQQSLVLLEDVDAAFLSRDLAVENPVKYQGLGRLTFSGLLNALDGVASTEA 324

Query: 303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGS 362
             RI+  TTNHVD+LDPALIR GR+D    + YC       + + +   ++  L      
Sbjct: 325 --RIVFMTTNHVDRLDPALIRPGRVDLKEYVGYCSHWQLTQMFQRFYPGQAPSLAENFAE 382

Query: 363 --LLGETDITPADVAENLM 379
             L     I+PA V    M
Sbjct: 383 HVLRATNQISPAQVQGYFM 401

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

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 68/220 (30%), Positives = 109/220 (49%), Gaps = 37/220 (16%)

Query: 144 TGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLA---MASK 200
             + +NQ+L+E   +++    R + K V         W    F +P +  +L+   +A  
Sbjct: 140 NAQLINQLLQEAMTLSL---NRDIGKTVIYINGGNGNWER--FGNPRSIRSLSSVILADD 194

Query: 201 KKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL 260
            K  + +D+  F   + +Y   G  ++RGYLL+G PG GKS++I A+A  LN D+  + L
Sbjct: 195 LKSKLIEDIKSFITNESWYRNRGIPYRRGYLLYGEPGNGKSSLINAIAGELNLDICIVSL 254

Query: 261 TSVE----------NNNELRSLL----VDISSKKKKSNV-------------TLSGLLNC 293
           +S +          NN   +S+L    +D + K  + NV             T SGLLN 
Sbjct: 255 SSKDIDDKQINHLLNNAPPKSILLIEDIDAAFKSHRDNVDSNNNNSNNNNSLTYSGLLNA 314

Query: 294 IGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
           + G+ S  G  RI+  TTN ++ LD ALIR GR+D  I++
Sbjct: 315 LDGVASQEG--RILFMTTNKIELLDSALIREGRIDLKIKV 352

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

Dictyostelium discoideum (taxid: 44689)

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

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 81/279 (29%), Positives = 131/279 (46%), Gaps = 44/279 (15%)

Query: 151 VLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYF-EHPATFDTLAMASKKKEAIKK 207
           +L+E + +A++ +  K  +Y  V  +      W    F        ++ +     E I +
Sbjct: 150 ILQEARELALKQQVGKTVMYNAVGAE------WRQFGFPRRRRPLSSVVLEQGISEKIVQ 203

Query: 208 DLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL--------- 258
           D+  F E  ++Y+  G  ++RGYLL+GPPG GKS+ I A+A  L Y +  +         
Sbjct: 204 DVKGFIENPKWYSDRGIPYRRGYLLYGPPGCGKSSFITALAGELEYSICLMSLSDSSLSD 263

Query: 259 ----ELTSVENNNELRSLLVD-----ISSKKKKSN---------VTLSGLLNCIGGLWST 300
                L SV     +  LL D     +S    K N         +T SGLLN + G+ ST
Sbjct: 264 DRLNHLLSVAPQQSI-ILLEDVDAAFVSRDLNKQNPTAYQGMGRLTFSGLLNALDGVAST 322

Query: 301 CGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCC-FEAFKVLAKNYLEIESHELFHE 359
               RI+  TTNH+D+LDPALIR GR+D    + +C  ++  ++  + Y +  + +    
Sbjct: 323 EA--RIVFMTTNHIDRLDPALIRPGRVDVKQYVGHCTNWQLSQMFLRFYPDQTAGQSEAF 380

Query: 360 IGSLLGETD-ITPADVAEN-LMPKSDEDDA--GTCLKNL 394
             + L  +D I+ A V  + +M K+D D A    CL  +
Sbjct: 381 ASAALSSSDKISAAQVQGHFMMHKTDPDGAIQNVCLATM 419

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

Xenopus laevis (taxid: 8355)

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

 Score = 90.5 bits (223), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 69/235 (29%), Positives = 111/235 (47%), Gaps = 35/235 (14%)

Query: 192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL 251
             ++ + S   E I  D+ +F    ++Y   G  ++RGYLL+GPPG GKS+ I A+A  L
Sbjct: 188 LSSVVLESGVAERIVDDVKEFIGNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 252 NYDVYDLELT----SVENNNELRS--------LLVDISSK---------------KKKSN 284
            Y +  + L+    S +  N L S        LL D+ +                +    
Sbjct: 248 GYSICLMSLSDRSLSDDRLNHLLSVAPQQSIILLEDVDAAFVSRELLPTENPLAYQGMGR 307

Query: 285 VTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL 344
           +T SGLLN + G+ S+    RI+  TTN +++LDPAL+R GR+D    + +C       +
Sbjct: 308 LTFSGLLNALDGVASSEA--RIVFMTTNFIERLDPALVRPGRVDLKQYVGHCSHWQLTQM 365

Query: 345 AKNYLEIES---HELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIE 396
            + +   ES    + F E  +L   TD++ A V  + M    + D    +KN+ E
Sbjct: 366 FRRFYPQESAAEADHFSE-QALAAHTDLSAAQVQGHFMLY--KTDPAGAIKNIAE 417

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

Danio rerio (taxid: 7955)

>sp|O18413|PRS8_DROME 26S protease regulatory subunit 8 OS=Drosophila melanogaster GN=Pros45 PE=1 SV=2

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 60/213 (28%), Positives = 96/213 (45%), Gaps = 32/213 (15%)

Query: 158 IAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKE 217
           +A+RN    L+K +P +         V     +T++ +    K+ + IK+ +    +  E
Sbjct: 113 VALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDKQIKEIKEVIELPVKHPE 172

Query: 218 YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS 271
            +  +G A  +G LL+GPPGTGK+ +  A+A+   C    V   EL      E +  +R 
Sbjct: 173 LFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRE 232

Query: 272 LLV----------------DISSKKKKSNV--------TLSGLLNCIGGLWSTCGGERII 307
           L V                 I S + +S          T+  LLN + G  +T   +  +
Sbjct: 233 LFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIK--V 290

Query: 308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEA 340
           +  TN +D LDPAL+R GR+D+ IE P    EA
Sbjct: 291 IMATNRIDILDPALLRPGRIDRKIEFPPPNEEA 323

The 26S protease is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex.

Drosophila melanogaster (taxid: 7227)

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	431
255552796	523	ATP binding protein, putative [Ricinus c	0.960	0.791	0.546	1e-145
224104059	494	predicted protein [Populus trichocarpa]	0.972	0.848	0.554	1e-143
224077259	484	predicted protein [Populus trichocarpa]	0.972	0.865	0.554	1e-142
359488753	528	PREDICTED: ATP-dependent zinc metallopro	0.937	0.765	0.559	1e-140
225452601	526	PREDICTED: uncharacterized protein LOC10	0.935	0.766	0.552	1e-139
359488873	520	PREDICTED: uncharacterized protein LOC10	0.937	0.776	0.547	1e-137
224076142	483	predicted protein [Populus trichocarpa]	0.969	0.865	0.520	1e-137
225452596	509	PREDICTED: uncharacterized protein LOC10	0.960	0.813	0.525	1e-135
225452605	521	PREDICTED: ATP-dependent zinc metallopro	0.932	0.771	0.536	1e-133
356567018	571	PREDICTED: uncharacterized protein LOC10	0.916	0.691	0.538	1e-131

>gi|255552796|ref|XP_002517441.1| ATP binding protein, putative [Ricinus communis] gi|223543452|gb|EEF44983.1| ATP binding protein, putative [Ricinus communis]

 Score =  520 bits (1338), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 264/483 (54%), Positives = 333/483 (68%), Gaps = 69/483 (14%)

Query: 4   ETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFL 63
           E W +LGS +A  MF +AMF+Q+ P Q   +L+++  KLV+ + PYL+I F+E++     
Sbjct: 5   EMWTNLGSAIAGIMFAWAMFQQYFPYQFRGYLDRYTRKLVAYVYPYLQITFHEYTGERLK 64

Query: 64  RNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWWVLG 110
           R++ Y+ IQ+YLS    T+  A R KAD             D+EE++DEY G++VWW   
Sbjct: 65  RSELYANIQNYLSATSSTT--AKRLKADVVKDGQSLILSMDDHEEITDEYNGIKVWWASS 122

Query: 111 KKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKN 170
           K  P++  + +YP + + R++ LT H+R+R++IT  Y++ VL+EGK I++RNRQRKLY N
Sbjct: 123 KTTPKSQTISWYPEAEERRYFKLTVHRRHRDIITTSYIDHVLKEGKTISIRNRQRKLYTN 182

Query: 171 VPCQAWY---EKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWK 227
            P Q WY     KWSHV FEHPATFDTL MA+KKK+ IK DLIKF++GKEYYAKIGKAWK
Sbjct: 183 NPSQNWYGWKASKWSHVVFEHPATFDTLGMATKKKQEIKNDLIKFSKGKEYYAKIGKAWK 242

Query: 228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK-------- 279
           RGYLL+GPPGTGKSTMIAAMAN LNYDVYDLELT+V++N+ELR LL++ +SK        
Sbjct: 243 RGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVKDNSELRKLLIETTSKSIIVIEDI 302

Query: 280 -------------------------------------------KKKSNVTLSGLLNCIGG 296
                                                       K S VTLSGLLN I G
Sbjct: 303 DCSLDLTGQRKPKKEKDDDDDDNDDEKKKDPVSKKKKKDEDESNKGSKVTLSGLLNFIDG 362

Query: 297 LWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
           +WS CGGERIIVFTTN+V+KLDPALIRRGRMDKHIEM YCCFEAFKVLAKNYL++ESHEL
Sbjct: 363 IWSACGGERIIVFTTNYVEKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDVESHEL 422

Query: 357 FHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELK 416
           + +I  LL ET++TPADVAENLMPKSDE+D  TCLKNLI AL+  KE+  +   EEA+LK
Sbjct: 423 YGKISKLLEETNMTPADVAENLMPKSDEEDEDTCLKNLIAALEETKEEEARKKAEEAKLK 482

Query: 417 AEE 419
           AE+
Sbjct: 483 AEQ 485

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104059|ref|XP_002333987.1| predicted protein [Populus trichocarpa] gi|222839463|gb|EEE77800.1| predicted protein [Populus trichocarpa]

 Score =  513 bits (1321), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 269/485 (55%), Positives = 330/485 (68%), Gaps = 66/485 (13%)

Query: 1   MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
           M GE W  L S +   +  + MF+Q+ P Q   +L K+  KL+S   PY+++ F+EF+S 
Sbjct: 1   MTGEIWTQLSSAITGLVLAWVMFEQYFPHQLRGYLHKYSQKLMSYAYPYIQVTFHEFTSE 60

Query: 61  NFLRNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWW 107
              R++A+S IQSYL     ++ +A R KAD             DYEEV+D + GV+VWW
Sbjct: 61  RLKRSEAFSAIQSYLGSN--STKNAKRLKADVVRNNEPLVLTMDDYEEVTDVFDGVKVWW 118

Query: 108 VLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKL 167
              K VP+T  + FYP + + RHY LTFHKR R++IT +Y+  V +EGKAIAV+NRQRKL
Sbjct: 119 SSSKTVPKTQSISFYPAADERRHYRLTFHKRNRDVITKKYIEHVRKEGKAIAVKNRQRKL 178

Query: 168 YKNVPCQ---AWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK 224
           + N P +   AW   KWSHV FEHPATFDTLAM +KKKE IKKDL KF++GK+YYAKIGK
Sbjct: 179 FTNNPSKNSYAWKSTKWSHVVFEHPATFDTLAMETKKKEEIKKDLTKFSKGKDYYAKIGK 238

Query: 225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK----- 279
           AWKRGYLL+GPPGTGKSTMI+AMAN L YD+YDLELT+V++N+ELR LL++ + K     
Sbjct: 239 AWKRGYLLYGPPGTGKSTMISAMANLLGYDIYDLELTTVKDNSELRKLLIETTGKSIIVI 298

Query: 280 --------------------------KKK-----------------SNVTLSGLLNCIGG 296
                                     K+K                 S VTLSGLLN I G
Sbjct: 299 EDIDCSLDLTGQRKKTKEKDDDDQSDKEKDPVSKKKKEAEEERKSGSKVTLSGLLNFIDG 358

Query: 297 LWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
           LWS CGGERIIVFTTN+VDKLDPALIRRGRMDKHIE+ YCCFEAFKVLAKNYLE+ESHE+
Sbjct: 359 LWSACGGERIIVFTTNYVDKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLELESHEM 418

Query: 357 FHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELK 416
           F +I  LLGET +TPADVAENLMP SDE+D   CLK LIE L+ AKE+A+K   EEA  K
Sbjct: 419 FGKIDELLGETKMTPADVAENLMPMSDEEDEEDCLKRLIEGLETAKEEARKKTKEEAVSK 478

Query: 417 AEEAN 421
           AE+A+
Sbjct: 479 AEKAD 483

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077259|ref|XP_002305194.1| predicted protein [Populus trichocarpa] gi|222848158|gb|EEE85705.1| predicted protein [Populus trichocarpa]

 Score =  510 bits (1314), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 269/485 (55%), Positives = 329/485 (67%), Gaps = 66/485 (13%)

Query: 1   MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
           M GE W  L S +   +  + MF+Q+ P Q   +L K+  KL+S + PY++I F+EF+S 
Sbjct: 1   MTGEIWTQLSSAITGLVLAWVMFEQYFPHQLRGYLHKYSQKLMSYVYPYIQITFHEFTSE 60

Query: 61  NFLRNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWW 107
              R++A+S IQSYL      +  A R KAD             DYEEV+D + GV+VWW
Sbjct: 61  RLKRSEAFSAIQSYLGSNSTKT--AKRLKADVVRNNEPLVLTMDDYEEVTDVFDGVKVWW 118

Query: 108 VLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKL 167
              K VP+T  + FYP + + RHY LTFHKR R++IT +Y+  V +EGKAIAV+NRQRKL
Sbjct: 119 SSSKTVPKTQSISFYPAADERRHYRLTFHKRNRDVITKKYIEHVRKEGKAIAVKNRQRKL 178

Query: 168 YKNVPCQ---AWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK 224
           + N   +   AW   KWSHV FEHPATFDTLAM +KKKE IKKDL KF++GK+YYAKIGK
Sbjct: 179 FTNNSSENSYAWKSTKWSHVVFEHPATFDTLAMETKKKEEIKKDLTKFSKGKDYYAKIGK 238

Query: 225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK----- 279
           AWKRGYLL+GPPGTGKSTMI+AMAN L+YD+YDLELT+V++N+ELR LL++ + K     
Sbjct: 239 AWKRGYLLYGPPGTGKSTMISAMANLLDYDIYDLELTTVKDNSELRKLLIETTGKSIIVI 298

Query: 280 --------------------------KKK-----------------SNVTLSGLLNCIGG 296
                                     K+K                 S VTLSGLLN I G
Sbjct: 299 EDIDCSLDLTGQRKKTKEKDDDDQSDKEKDPVSKKKKEAEEERKSGSKVTLSGLLNFIDG 358

Query: 297 LWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
           LWS CGGERIIVFTTN+VDKLDPALIRRGRMDKHIE+ YCCFEAFKVLAKNYLE+ESHE+
Sbjct: 359 LWSACGGERIIVFTTNYVDKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLELESHEM 418

Query: 357 FHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELK 416
           F +I  LLGET +TPADVAENLMP SDE+D   CLK LIE L+ AKE+A+K   EEA  K
Sbjct: 419 FGKIEELLGETKMTPADVAENLMPMSDEEDEEDCLKRLIEGLETAKEEARKKTEEEAVSK 478

Query: 417 AEEAN 421
           AE+A+
Sbjct: 479 AEKAD 483

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488753|ref|XP_002275823.2| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like [Vitis vinifera]

 Score =  505 bits (1301), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 263/470 (55%), Positives = 319/470 (67%), Gaps = 66/470 (14%)

Query: 1   MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
           +M E +  LGS  A  MF++AMF+Q+ P Q   ++EK+ H LVS + PY++I   EF+ N
Sbjct: 2   VMAEMFAELGSLAAGAMFLWAMFRQYFPYQLRPYIEKYSHNLVSFVYPYIQITVQEFTEN 61

Query: 61  NFLRNK--AYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRV 105
           +F R +  AY+ I++YLS    +S  A R KAD             D+EEV+DE+KGV++
Sbjct: 62  SFRRKRSEAYAAIENYLSAN--SSTRAKRLKADIVKDSQSVVLSMDDHEEVTDEFKGVKL 119

Query: 106 WWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQR 165
           WW   K  P    + FYP +  +R+Y LTFHK+YR+LI G Y+N V++EGKAIAVRNRQR
Sbjct: 120 WWASNKNPPPMQTISFYPAADGKRYYKLTFHKQYRDLIVGSYLNHVIKEGKAIAVRNRQR 179

Query: 166 KLYKNVPCQAWYEKK---WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKI 222
           KLY N P Q WY  K   WSHV FEHPATF+TLAM SKKKE I  DL  F   KEYY+KI
Sbjct: 180 KLYTNNPSQNWYGYKKSVWSHVTFEHPATFETLAMESKKKEEIVNDLTIFRTRKEYYSKI 239

Query: 223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK--- 279
           GKAWKRGYLL GPPGTGKS+MIAAMAN LNYD+YDLELTSV++N ELR LL++ +SK   
Sbjct: 240 GKAWKRGYLLHGPPGTGKSSMIAAMANLLNYDIYDLELTSVKDNTELRKLLIETTSKSIL 299

Query: 280 -----------------------------------------KKKSNVTLSGLLNCIGGLW 298
                                                     K+S VTLSGLLN I GLW
Sbjct: 300 VIEDIDCSLDLTGQRKKKKEKEEEDEESKDNPILKKGKEGESKESKVTLSGLLNFIDGLW 359

Query: 299 STCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFH 358
           S CG ER+IVFTTNHV+KLDPALIRRGRMDKHIE+ YCCFEAFKVLAKNYL+++SH LF 
Sbjct: 360 SACGEERLIVFTTNHVEKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLDLDSHHLFA 419

Query: 359 EIGSLLGETDITPADVAENLMPKS-DEDDAGT-CLKNLIEALKAAKEKAK 406
            I  LL ET++TPADVAENLMPKS   DD GT CL+NLI+AL+ AKE+A+
Sbjct: 420 SIRRLLEETNMTPADVAENLMPKSISTDDPGTACLENLIQALETAKEEAR 469

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452601|ref|XP_002281222.1| PREDICTED: uncharacterized protein LOC100257701 [Vitis vinifera]

 Score =  501 bits (1289), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 259/469 (55%), Positives = 322/469 (68%), Gaps = 66/469 (14%)

Query: 2   MGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNN 61
           MGE +G LGS  A  +F++AMF+Q+ P Q   ++EK+  KLVS + PY++I F EF+ N+
Sbjct: 1   MGEMFGQLGSVAAGAIFLWAMFQQYFPYQLRPYIEKYSQKLVSFVYPYIQITFQEFTENS 60

Query: 62  FLRNK--AYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVW 106
           F R +  AY+ I++YLS    +S  A R KAD             D+EEV+DE++GV++W
Sbjct: 61  FRRKRSEAYAAIENYLSAN--SSARAKRLKADIIKDSQSVVLSMDDHEEVTDEFQGVKLW 118

Query: 107 WVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRK 166
           WV  K  P+   + FYP + ++R+Y LTFH++YR+LI G Y+N V++EGKAIAVRNRQRK
Sbjct: 119 WVSNKSPPKMQAISFYPAADEKRYYRLTFHQQYRDLIVGSYLNHVIKEGKAIAVRNRQRK 178

Query: 167 LYKNVPCQAWYEKK---WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIG 223
           L  N P   W+  K   WSHV FEHPATF+TLAM SKKKE I  DL  F   K+YY+KIG
Sbjct: 179 LCTNNPSDNWHGYKKSVWSHVAFEHPATFETLAMESKKKEEIVNDLTIFRTRKDYYSKIG 238

Query: 224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK---- 279
           KAWKRGYLL GPPGTGKS+MIAAMAN LNYD+YDLELTSV++N ELR LL++ +SK    
Sbjct: 239 KAWKRGYLLHGPPGTGKSSMIAAMANLLNYDIYDLELTSVKDNTELRKLLIETTSKSIIV 298

Query: 280 ----------------------------------------KKKSNVTLSGLLNCIGGLWS 299
                                                    K+S VTLSGLLN I GLWS
Sbjct: 299 IEDIDCSLDLTGQRKKKKEKEEEDEESKDNPIPKKGKEGESKESKVTLSGLLNFIDGLWS 358

Query: 300 TCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHE 359
            CG ER+IVFTTNHV+KLDPALIRRGRMD+HIE+ YCCFEAFKVLAKNYL+++SH LF  
Sbjct: 359 ACGEERLIVFTTNHVEKLDPALIRRGRMDRHIELSYCCFEAFKVLAKNYLDLDSHHLFAS 418

Query: 360 IGSLLGETDITPADVAENLMPKS-DEDDAGT-CLKNLIEALKAAKEKAK 406
           I  LL ET++TPADVAENLMPKS   DD GT CL+NLI+AL+ AKE+A+
Sbjct: 419 IRRLLEETNMTPADVAENLMPKSISTDDPGTACLENLIQALETAKEEAR 467

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488873|ref|XP_002275941.2| PREDICTED: uncharacterized protein LOC100252565 [Vitis vinifera]

 Score =  496 bits (1276), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 254/464 (54%), Positives = 313/464 (67%), Gaps = 60/464 (12%)

Query: 1   MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
           MMGE W   GS +A  MF++ MF+Q+ P Q   ++EK+  KLVS + PY++I F EFS +
Sbjct: 3   MMGEMWAKPGSLVAGAMFLWVMFQQYTPHQFRSYIEKYSQKLVSFVYPYIQITFQEFSED 62

Query: 61  NFLRNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWW 107
            F R++AY  I++YLS    T   A R KAD             D EEV+DE+KGV++WW
Sbjct: 63  RFKRSEAYVAIENYLSVNAST--RAKRLKADVIKDSQSLVLSMDDREEVTDEFKGVKLWW 120

Query: 108 VLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKL 167
              K  P+T    FYP + ++R Y LTFHK +RE+  G Y+N V++EGKAI VRNRQRKL
Sbjct: 121 ASHKNPPKTQTFSFYPAADEKRFYKLTFHKNHREMFVGSYLNHVMKEGKAIEVRNRQRKL 180

Query: 168 YKNVPCQAWYEKK---WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK 224
           Y N P   W+  +   WSHV FEHPA F+TLAM  KKKE I  DL  F+  KEYY+KIGK
Sbjct: 181 YTNNPSDKWHGYRRTLWSHVAFEHPARFETLAMEPKKKEEIVNDLTIFSRRKEYYSKIGK 240

Query: 225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK----- 279
           AWKRGYLL+GPPGTGKSTMIAAMAN L+YD+YDLELTSV++N ELR LL++  +K     
Sbjct: 241 AWKRGYLLYGPPGTGKSTMIAAMANLLDYDIYDLELTSVKSNTELRMLLIETRNKSIIVI 300

Query: 280 ------------------------------------KKKSNVTLSGLLNCIGGLWSTCGG 303
                                                K+S VTLSGLLN I GLWSTCG 
Sbjct: 301 EDIDCSLDLTGQRKKKKETNEEEKKDPIRKMEKEGESKESKVTLSGLLNVIDGLWSTCGE 360

Query: 304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSL 363
           ER+I+FTTN+V+KLDPALIRRGRMDKHIE+ YCCFEAFKVLAKNYL+++SH LF  I  L
Sbjct: 361 ERLIIFTTNYVEKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLDLDSHHLFASIRRL 420

Query: 364 LGETDITPADVAENLMPKSDEDDAG-TCLKNLIEALKAAKEKAK 406
           L ET++TPADVAENLMPKS   D G TCL++LI+AL+ AKE+A+
Sbjct: 421 LEETNMTPADVAENLMPKSVTGDPGTTCLESLIQALETAKEEAR 464

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224076142|ref|XP_002304895.1| predicted protein [Populus trichocarpa] gi|222847859|gb|EEE85406.1| predicted protein [Populus trichocarpa]

 Score =  493 bits (1270), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 253/486 (52%), Positives = 332/486 (68%), Gaps = 68/486 (13%)

Query: 6   WGSLGSTLATFMFVFAMFKQHI---PRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNF 62
           W  L +T+++   VF MF++++   P     + E++  K+V+ +NPY+ I+F+EF+S   
Sbjct: 2   WTELSATISSLAVVFFMFEKYLNYFPYTIRGYAERNFRKVVNFVNPYVAISFHEFTSERL 61

Query: 63  LRNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWWVL 109
            R+ A+  IQ+YL     ++ +A R KAD              YEEV+D + GVRVWW  
Sbjct: 62  KRSDAFFAIQNYLG--TSSTENARRLKADVVKDSQSVVLSMDAYEEVTDVFNGVRVWWAS 119

Query: 110 GKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYK 169
           GK  P++  +  +PGS ++R+Y LTFHK YRE+IT  YV  VL++GK IAV+NRQR LY 
Sbjct: 120 GKIPPQSKSISLFPGSEEKRYYKLTFHKHYREIITKSYVEHVLKKGKEIAVKNRQRMLYT 179

Query: 170 NVPCQAWY---EKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW 226
           N P + W+     KW ++ FEHP+TFDTLAM + KKE IKKDLIKF++GK+YYAKIGKAW
Sbjct: 180 NNPSKDWHGWKPTKWGNIVFEHPSTFDTLAMDTAKKEEIKKDLIKFSKGKDYYAKIGKAW 239

Query: 227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLV------------ 274
           KRGYLL+GPPGTGKS+MIAAMAN L+YDVYDLELT++++N+ELR LL+            
Sbjct: 240 KRGYLLYGPPGTGKSSMIAAMANLLDYDVYDLELTTIKDNSELRKLLIETKGKSIIVIED 299

Query: 275 -----DISSKKKK----------------------------SNVTLSGLLNCIGGLWSTC 301
                D++ ++KK                            S VTLSGLLN I G+WS C
Sbjct: 300 IDCSLDLTGQRKKRKEKDDDEADKEKDPISKKKKEAEEESGSKVTLSGLLNVIDGIWSAC 359

Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIG 361
           GGERII+FTTN+VDKLDPALIRRGRMDKHI M YCCFEAFKVLAKNYL+IESHELF +I 
Sbjct: 360 GGERIIIFTTNYVDKLDPALIRRGRMDKHIVMSYCCFEAFKVLAKNYLDIESHELFGKIE 419

Query: 362 SLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELKAEEAN 421
            L  E+ ++PADVA++LMPKSDE D  TCLK L+EAL+A+KE+A+K + EEA LK +  +
Sbjct: 420 ELFVESKMSPADVADSLMPKSDEQDEETCLKRLVEALEASKEEARKKSEEEAMLKTK--D 477

Query: 422 GSIAKG 427
           G + +G
Sbjct: 478 GVVTEG 483

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452596|ref|XP_002275800.1| PREDICTED: uncharacterized protein LOC100255946 [Vitis vinifera]

 Score =  489 bits (1259), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 250/476 (52%), Positives = 320/476 (67%), Gaps = 62/476 (13%)

Query: 1   MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
           +M E W  LGS++A+ MF++AMF ++ PR     + +   +L SL  PY++I F+EFS +
Sbjct: 4   VMKELWAQLGSSIASLMFLWAMFHRYFPRHLQASIARLYDRLSSLFYPYIQIRFHEFSRD 63

Query: 61  NFLRNKAYSEIQSYLSGREETSLHASRFKA-------------DDYEEVSDEYKGVRVWW 107
           +F RN+AYS I+SYL  +  ++  A R K              DD+EEVSDE++G+++ W
Sbjct: 64  SFRRNEAYSAIESYLGSK--STKQAKRLKGNVQRNSKSVVLTMDDHEEVSDEFQGIKLVW 121

Query: 108 VLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKL 167
            L K VP T    FYP + ++R+Y LTFH +YRE+ITG Y+  V+EEG+AIA +NRQRKL
Sbjct: 122 SLIKLVPTTQSFSFYPATSEKRYYKLTFHMKYREIITGSYLKYVVEEGQAIAFKNRQRKL 181

Query: 168 YKNVPCQAWYEKK--WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA 225
           Y N P    Y  +  WSHV FEHP +F+T+A+  KKKE I  DL  F++ KEYYA+IGKA
Sbjct: 182 YTNNPSHNSYSSRTLWSHVVFEHPGSFETMAIDQKKKEEIMDDLTTFSKAKEYYARIGKA 241

Query: 226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK------ 279
           WKRGYLL+GPPGTGKSTMIAA+AN L YDVYDLELT+V++N ELR LL++ SSK      
Sbjct: 242 WKRGYLLYGPPGTGKSTMIAAIANFLKYDVYDLELTAVKSNTELRKLLIETSSKSIIVIE 301

Query: 280 --------------------------------------KKKSNVTLSGLLNCIGGLWSTC 301
                                                 ++ S VTLSGLLN I G+WS+ 
Sbjct: 302 DIDCSLGLTGQRKKKNQKDGNKEETDPIKKKEEEEDGERQNSKVTLSGLLNFIDGIWSSS 361

Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIG 361
           GGER+I+FTTN+V KLDPALIRRGRMDKHIE+ YC FEAFKVLAKNYL IESH  F  IG
Sbjct: 362 GGERLIIFTTNYVKKLDPALIRRGRMDKHIELSYCSFEAFKVLAKNYLNIESHPFFETIG 421

Query: 362 SLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELKA 417
           SLL E  +TPADVAENLMPK+ + D+ TCL++LI+AL+AAK K   NA EE +L+A
Sbjct: 422 SLLEEISMTPADVAENLMPKTIKGDSETCLESLIQALEAAK-KDSINAKEELKLRA 476

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452605|ref|XP_002275965.1| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like [Vitis vinifera]

 Score =  480 bits (1235), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 247/460 (53%), Positives = 307/460 (66%), Gaps = 58/460 (12%)

Query: 3   GETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNF 62
           GE W   GS +A  MF++ MF+Q +P Q   ++EK+  KLVS + PY++I F E+S N +
Sbjct: 6   GEMWAKPGSLVAGAMFLWVMFQQCMPHQFRSYIEKYSQKLVSFVYPYIQITFQEYSENRY 65

Query: 63  LRNKAYSEIQSYLSGREETSLHASRFKAD-------------DYEEVSDEYKGVRVWWVL 109
            R++AY  I++YLS   + S  A R KAD             + EEV +E+KGV++WW  
Sbjct: 66  RRSEAYVAIENYLSV--DASTRAKRLKADVIKDSQSLVLSMDEREEVREEFKGVKLWWAS 123

Query: 110 GKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYK 169
            K  P+     F P + ++R+Y LTFHK +RE+I G Y+N V++EGKAI VRNRQRKL+ 
Sbjct: 124 DKTPPKMQTFSFAPAADEKRYYKLTFHKNHREMIVGSYLNHVMKEGKAIEVRNRQRKLFT 183

Query: 170 NVPCQAWYEKK---WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW 226
           N     WY  K   WSHV FEHPA F+TLAM  KKKE I  DL  F+  KEYY+KIGKAW
Sbjct: 184 NNSRDTWYGYKKAVWSHVAFEHPARFETLAMEPKKKEEIINDLTIFSRRKEYYSKIGKAW 243

Query: 227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISS-------- 278
           KRGYLL+GPPGTGKSTMIAAMAN L+YD+YDLELTSV++N ELR LL+D  S        
Sbjct: 244 KRGYLLYGPPGTGKSTMIAAMANLLDYDLYDLELTSVKDNTELRKLLIDTRSKSIIVIED 303

Query: 279 --------------------------------KKKKSNVTLSGLLNCIGGLWSTCGGERI 306
                                           K+ +S VTLSGLLN I GLWSTCG ER+
Sbjct: 304 IDCSLDLTGQRKKKKEKEEDEESKDNSITKKGKEDESKVTLSGLLNVIDGLWSTCGEERL 363

Query: 307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE 366
           IVFTTN+V+KLDPALIRRGRMDKHIE+ YCCF+AFKVLAKNYL+++SH LF  I  L+ E
Sbjct: 364 IVFTTNYVEKLDPALIRRGRMDKHIELSYCCFDAFKVLAKNYLDLDSHHLFASIRRLMEE 423

Query: 367 TDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAK 406
           T++TPADVAE LMPK+  DD GTCL+NLI AL  AK +A+
Sbjct: 424 TNMTPADVAEYLMPKTITDDPGTCLENLILALGTAKGEAR 463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567018|ref|XP_003551720.1| PREDICTED: uncharacterized protein LOC100777731 [Glycine max]

 Score =  476 bits (1224), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 246/457 (53%), Positives = 300/457 (65%), Gaps = 62/457 (13%)

Query: 2   MGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNN 61
           MGE W  +GS +AT MFV+AM ++  P      L+ H  K+V+LL PY++I F EFS   
Sbjct: 1   MGELWTQMGSLMATIMFVYAMVERFFPAALRDTLQIHTQKVVNLLYPYVQITFPEFSGER 60

Query: 62  FLRNKAYSEIQSYLSGREETSLHASRFKA--------------DDYEEVSDEYKGVRVWW 107
             R++AY+ IQ+YLS  E +S  A R KA              DD EEV+DE++GV++WW
Sbjct: 61  LKRSEAYTAIQTYLS--ENSSQLAKRLKAEVVKDSQNPLVLSMDDDEEVTDEFQGVKLWW 118

Query: 108 VLGKKV--PRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQR 165
              K    P      +Y     +R++ LTFHK++R+LIT  Y+  VLEEGK IA+RNRQR
Sbjct: 119 AASKTASNPHAYSFSYYSPPDGKRYFKLTFHKKHRDLITISYIKHVLEEGKEIALRNRQR 178

Query: 166 KLYKNVPCQAWY---EKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKI 222
           KLY N P   WY   + KWSH+ FEHPATF+TLAM  +KKE I  DL+KF  GK+YYAKI
Sbjct: 179 KLYTNNPSSGWYGYKQSKWSHIVFEHPATFETLAMDHRKKEEIINDLVKFRNGKDYYAKI 238

Query: 223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK--- 279
           GKAWKRGYLL+GPPGTGKSTMIAAMAN +NYDVYDLELT+V++N ELR LL++ SSK   
Sbjct: 239 GKAWKRGYLLYGPPGTGKSTMIAAMANFMNYDVYDLELTAVKDNTELRKLLIETSSKAII 298

Query: 280 --------------------------------------KKKSNVTLSGLLNCIGGLWSTC 301
                                                  K S VTLSGLLN I G+WS C
Sbjct: 299 VVEDIDCSLDLTGQRNMRRERGEEEEPKDPSKKDEEEGNKNSKVTLSGLLNFIDGIWSAC 358

Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIG 361
           GGERII+FTTN VDKLDPALIR GRMDKHIE+ YC FEAFKVLAKNYL+++SH LF  I 
Sbjct: 359 GGERIIIFTTNFVDKLDPALIRTGRMDKHIELSYCRFEAFKVLAKNYLDVDSHNLFARIA 418

Query: 362 SLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEAL 398
           +LL  T++TPADVAENLMPK   +D   CL NLI++L
Sbjct: 419 NLLEVTNVTPADVAENLMPKCVNEDVEACLLNLIQSL 455

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	431
TAIR|locus:2095512	500	AT3G28580 [Arabidopsis thalian	0.640	0.552	0.494	5.5e-113
TAIR|locus:2098658	530	AT3G28510 [Arabidopsis thalian	0.638	0.518	0.464	2.7e-111
TAIR|locus:2178067	514	AATP1 "AAA-ATPase 1" [Arabidop	0.642	0.538	0.494	1.2e-108
TAIR|locus:2098648	510	AT3G28540 [Arabidopsis thalian	0.626	0.529	0.442	5.8e-105
TAIR|locus:2098638	478	AT3G28520 [Arabidopsis thalian	0.603	0.543	0.414	1.1e-93
TAIR|locus:2095532	477	AT3G28600 [Arabidopsis thalian	0.607	0.549	0.411	2.7e-92
TAIR|locus:2095537	474	AT3G28610 [Arabidopsis thalian	0.607	0.552	0.398	5.5e-92
TAIR|locus:2178057	470	AT5G40000 [Arabidopsis thalian	0.614	0.563	0.426	1.5e-91
TAIR|locus:2128916	519	AT4G30250 [Arabidopsis thalian	0.443	0.368	0.415	1.1e-67
TAIR|locus:2078007	451	AT3G50940 [Arabidopsis thalian	0.617	0.589	0.309	2e-67

TAIR|locus:2095512 AT3G28580 [Arabidopsis thaliana (taxid:3702)]

 Score = 706 (253.6 bits), Expect = 5.5e-113, Sum P(2) = 5.5e-113
 Identities = 145/293 (49%), Positives = 189/293 (64%)

Query:     1 MMGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSN 60
             MMG+ W + GS LAT MFV+ +FKQ  P      LE   ++L     PY++I F+E+S  
Sbjct:     3 MMGQLWTNTGSALATLMFVYTIFKQFFPLFGPQ-LEPFLYRLFGRFYPYIQITFHEYSGE 61

Query:    61 NFLRNKAYSEIQSYLSGREETSLHASRFKA-------------DDYEEVSDEYKGVRVWW 107
             +F R++AY  IQSYLS  +++S  A + KA             DD EE++D+++G+RVWW
Sbjct:    62 HFKRSEAYLGIQSYLS--KDSSARAKKLKANTTKGSKSIVLSMDDKEEITDDFEGIRVWW 119

Query:   108 VLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKL 167
                K+        FYP + ++R+Y L FH+R RE+I   Y+  V+ EGK I  +NR+RKL
Sbjct:   120 QSKKEGATRQSFSFYPEANEKRYYMLRFHRRDREVIIERYLEHVMREGKTIEQKNRERKL 179

Query:   168 YKNVPCQAW-YEKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKAW 226
             Y N P Q+     KWSHV FEHPATFDTLAM              F++ K+YY KIGKAW
Sbjct:   180 YSNTPGQSHGNNSKWSHVTFEHPATFDTLAMEENKKEEIKSDLIKFSKSKDYYKKIGKAW 239

Query:   227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             KRGYLLFGPPGTGKSTMIAAMAN L YDVYDLELT+V++N  LR LL++ S+K
Sbjct:   240 KRGYLLFGPPGTGKSTMIAAMANFLEYDVYDLELTTVKDNTHLRRLLIETSAK 292

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:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0009723 "response to ethylene stimulus" evidence=RCA

TAIR|locus:2098658 AT3G28510 [Arabidopsis thaliana (taxid:3702)]

 Score = 681 (244.8 bits), Expect = 2.7e-111, Sum P(2) = 2.7e-111
 Identities = 136/293 (46%), Positives = 194/293 (66%)

Query:     3 GETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNF 62
             G  WG  G+T+ +FMF +A++KQ++P     ++E++ HK++  ++ Y++I F E++    
Sbjct:     5 GAIWGITGTTVTSFMFFWAIYKQYVPAHFRAYVERYFHKMIGWISYYVDIKFTEYTDEGL 64

Query:    63 LRNKAYSEIQSYLSGREETSLHASRFKA-------------DDYEEVSDEYKGVRVWWVL 109
              R++AY  I++YL+ +  T+L A R KA             DD+EE+ DE++GV+V W  
Sbjct:    65 KRSQAYDSIRNYLASKS-TAL-AKRLKANETKNSKSLVFSMDDHEEIEDEFEGVKVKWYS 122

Query:   110 GKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYK 169
               KV +    Y    S + RH+TL+FH+R+R +I   Y++ VL EGKAI + NR+RKLY 
Sbjct:   123 NVKVIQPQSNYGQRSSEERRHFTLSFHRRHRGMIIETYLDHVLREGKAIGLMNRERKLYT 182

Query:   170 NVPCQAWY---EKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKAW 226
             N   Q WY     KWS+V F HPATF+TLAM              F++GK+YY K+GK W
Sbjct:   183 NNSSQEWYPWRSGKWSNVPFHHPATFETLAMDPEKKEGIKKDLIKFSKGKDYYKKVGKPW 242

Query:   227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             KRGYLLFGPPGTGKSTMIAA+AN L+YDVYDLELT+V++N+EL+ LL+D +SK
Sbjct:   243 KRGYLLFGPPGTGKSTMIAAIANFLDYDVYDLELTTVKDNSELKKLLLDTTSK 295

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0001666 "response to hypoxia" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2178067 AATP1 "AAA-ATPase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 725 (260.3 bits), Expect = 1.2e-108, Sum P(2) = 1.2e-108
 Identities = 145/293 (49%), Positives = 191/293 (65%)

Query:     2 MGETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNN 61
             MGE W + GS LA+ +F++ +F++  P +     E     L+  + PY++I F+E+S   
Sbjct:     4 MGEVWTNTGSALASLVFIYTIFERFFPYRLREHFEPLAQSLIGFIYPYIQITFHEYSGER 63

Query:    62 FLRNKAYSEIQSYLSGREETS----LHASRFKA--------DDYEEVSDEYKGVRVWWVL 109
             F R+  Y  IQSYLS ++ +S    L A+  K         DD+EE++DE++GV+VWW  
Sbjct:    64 FKRSDVYDAIQSYLS-KDSSSRAKKLTANTIKGNKSIILSMDDHEEITDEFQGVKVWWQS 122

Query:   110 GKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYK 169
              K    +  + FYP + + R Y L FH+R RE+IT +Y+N V+ EGK I V+NR+RKLY 
Sbjct:   123 KKHQSESRAISFYPKADESRFYMLKFHRRDREVITKKYLNHVISEGKTIEVKNRERKLYS 182

Query:   170 NVPCQAW--YEK-KWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKAW 226
             N P Q W  Y++ KWSHV FEHPATFDTLAM              F+  K+YY KIGKAW
Sbjct:   183 NNPSQNWSGYKQTKWSHVTFEHPATFDTLAMEYKKKEEIKNDLIKFSNSKDYYKKIGKAW 242

Query:   227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             KRGYLLFGPPGTGKSTMIAAMAN L YDVYDLELT+V++N ELR LL++ S K
Sbjct:   243 KRGYLLFGPPGTGKSTMIAAMANLLEYDVYDLELTTVKDNTELRRLLIETSGK 295

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;IDA

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0010154 "fruit development" evidence=IMP

GO:0010431 "seed maturation" evidence=IMP

GO:0001666 "response to hypoxia" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2098648 AT3G28540 [Arabidopsis thaliana (taxid:3702)]

 Score = 602 (217.0 bits), Expect = 5.8e-105, Sum P(2) = 5.8e-105
 Identities = 130/294 (44%), Positives = 187/294 (63%)

Query:     3 GETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNF 62
             G  +G  G+T+A+ MF +++++Q +P Q   +LEK  +K+  L++  + I F E++ +  
Sbjct:     5 GGLFGFTGTTMASLMFFWSVYRQFVPYQIRDYLEKCFYKMFGLVSNSVHIKFTEYTEDKG 64

Query:    63 LR-NKAYSEIQSYLSGREETSLHASRFKA-------------DDYEEVSDEYKGVRVWWV 108
             L+ ++AY  I++YLS +  ++  A R KA             D++E V D ++GV+V W 
Sbjct:    65 LKKSQAYDLIRNYLSSK--STARAQRLKANESKNSKSLVLSLDNHEAVEDVFQGVKVVWS 122

Query:   109 LGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLY 168
             L               S ++R+ TL+FH RYRE+IT  Y++ VL EGK I ++NR+RKLY
Sbjct:   123 LSVWKSNDQA-----DSSEKRYLTLSFHNRYREMITTTYLDHVLREGKEIGLKNRERKLY 177

Query:   169 KNVPCQ---AWYEKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKA 225
              N   Q   AW E +WS+V F+HPATF+TLAM              FT+GK+YY K+GK 
Sbjct:   178 TNNSSQDYSAWREGRWSNVPFDHPATFETLAMDLEKKEGMKKDLIKFTKGKDYYRKVGKP 237

Query:   226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             WKRGYLLFGPPGTGKSTMI+AMAN L YDVYDLELT+V++N+EL+ L++D   K
Sbjct:   238 WKRGYLLFGPPGTGKSTMISAMANFLEYDVYDLELTTVKDNSELKKLMLDTKGK 291

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2098638 AT3G28520 [Arabidopsis thaliana (taxid:3702)]

 Score = 508 (183.9 bits), Expect = 1.1e-93, Sum P(2) = 1.1e-93
 Identities = 119/287 (41%), Positives = 167/287 (58%)

Query:    13 LATFMFVFAMFKQHIPRQAWYFLE----KHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAY 68
             +A+ MF++ M+KQ +P Q   +LE    K+  KL    + ++ I F E++     +++AY
Sbjct:     1 MASIMFLWPMYKQFVPYQLREYLENTIQKYLDKLFRRDSNFVYIRFPEYTGEGLSKSRAY 60

Query:    69 SEIQSYLSGREETSLHASRFKA-------------DDYEEVSDEYKGVRVWWVLGKKVPR 115
              EI +YLS    ++  A R KA             DD E V   ++GV V W     V +
Sbjct:    61 DEIGNYLSSI--STARAKRLKAKESENSKSLVLCLDDDEAVVVVFQGVNVVWS-STVVDK 117

Query:   116 TPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQA 175
                      S + R+ TLTF   +R++IT  Y++ VL EGK IA++NR+RKLY N    +
Sbjct:   118 EDK----HNSKEGRYLTLTFENHHRDIITNTYIDHVLREGKEIALKNRERKLYTNNDSSS 173

Query:   176 ---WYEKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKAWKRGYLL 232
                W+E  WS+V F H A+F+TL M              FT+GK+YY K+ K WKRGYLL
Sbjct:   174 YSSWWEGLWSNVPFNHHASFETLGMDLDKKEEIKKDLIKFTKGKDYYRKVAKPWKRGYLL 233

Query:   233 FGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             FGPPGTGKSTMI+A+AN L YDVYDLELT+V++N EL+ L++D   K
Sbjct:   234 FGPPGTGKSTMISAIANFLEYDVYDLELTTVKDNAELKKLMLDTKGK 280

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:0009506 "plasmodesma" evidence=IDA

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

 Score = 538 (194.4 bits), Expect = 2.7e-92, Sum P(2) = 2.7e-92
 Identities = 126/306 (41%), Positives = 174/306 (56%)

Query:     1 MMGETWGSLGSTLATFMFVFAMFKQHIPR--------------QAWYFLEKHCHKLVSLL 46
             MMG T+GS   +LA+  F++A  +Q  P               Q   F+++   + ++  
Sbjct:     2 MMGNTFGS---SLASLFFLWATIQQIFPNHLRIAIKEFLISTIQQLSFVQRFSDRFINFF 58

Query:    47 NPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGR---EETSLHASRFKAD-------DYEEV 96
             +PY+EI+F ++    F  N A++ I++YL  +   +   L AS+ K         D  +V
Sbjct:    59 SPYVEISFSQYEDYQF--NHAFAAIETYLGAKATDKAKHLRASQVKESKGLVLKRDETKV 116

Query:    97 SDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGK 156
              DEY+G  VWW +  +   T         Y  R + LTFH+R R+++T  Y+  V EEGK
Sbjct:   117 RDEYEGGTVWWEM--ETDST--------GY--RTFKLTFHRRSRDIVTDSYIKYVFEEGK 164

Query:   157 AIAVRNRQRKLYKNVPCQAWYEKK---WSHVYFEHPATFDTLAMASXXXXXXXXXXXXFT 213
             +I  +++Q KL+ N P   W   K   W ++ FEHPA+F TLAM +            F+
Sbjct:   165 SIQAKSKQMKLFTNNPSSHWGTSKKSFWRYIDFEHPASFHTLAMDTKKKEEILNDLAAFS 224

Query:   214 EGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL 273
              GKEYY KIGKAWKRGYLL GPPGTGKSTMIAAMAN LNY +YDLELT++ NN+ELR LL
Sbjct:   225 NGKEYYKKIGKAWKRGYLLHGPPGTGKSTMIAAMANHLNYSIYDLELTAIRNNSELRKLL 284

Query:   274 VDISSK 279
                SSK
Sbjct:   285 TATSSK 290

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 = 530 (191.6 bits), Expect = 5.5e-92, Sum P(2) = 5.5e-92
 Identities = 122/306 (39%), Positives = 173/306 (56%)

Query:     1 MMGETWGSLGSTLATFMFVFAMFKQHIPR--------------QAWYFLEKHCHKLVSLL 46
             MMG  +GS   +LA+  F++A  +Q  P               Q   F ++   K ++  
Sbjct:     1 MMGNMFGS---SLASLFFLWATIQQIFPNHLKIAIKEFFLSTIQQISFAKRFSDKFINFF 57

Query:    47 NPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGR---EETSLHASRFKAD-------DYEEV 96
             +PY++I F E+   ++  N A+  I++YL  +   +   L AS+ +         D  +V
Sbjct:    58 SPYVQINFSEYE--DYRVNHAFDPIETYLGAKATDKAKHLRASQVRESKGLVLKRDETKV 115

Query:    97 SDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGK 156
              DEY+G+RVWW +      T         Y  +   LTFH+R R+++T  Y+  V+EEGK
Sbjct:   116 RDEYEGIRVWWEM-----ETD-----SAGY--KTLKLTFHRRSRDIVTNSYIKYVVEEGK 163

Query:   157 AIAVRNRQRKLYKNVPCQAWYEKK---WSHVYFEHPATFDTLAMASXXXXXXXXXXXXFT 213
             +I  +N++ KL+ N P   W   K   W ++ FEHPATF+TLAM              F 
Sbjct:   164 SIDAKNKKMKLFTNNPSSHWGSSKTSFWRYIDFEHPATFETLAMDPKKKEQILNDLAAFN 223

Query:   214 EGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL 273
              GK+YY KIGKAWKRGYLL+GPPGTGKSTMIAAMAN LNY +YDLELT+++NN+ELR +L
Sbjct:   224 NGKDYYKKIGKAWKRGYLLYGPPGTGKSTMIAAMANLLNYSIYDLELTAIQNNSELRKIL 283

Query:   274 VDISSK 279
                S+K
Sbjct:   284 TATSNK 289

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

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

TAIR|locus:2178057 AT5G40000 [Arabidopsis thaliana (taxid:3702)]

 Score = 553 (199.7 bits), Expect = 1.5e-91, Sum P(2) = 1.5e-91
 Identities = 130/305 (42%), Positives = 178/305 (58%)

Query:     1 MMGETWGSLGSTLATFMFVFAMFKQHIPR--------------QAWYFLEKHCHKLVSLL 46
             MMG+++GS+GS++A+  F++A  +Q  P               Q   F ++      +L 
Sbjct:     3 MMGDSFGSIGSSMASLFFLWATIQQIFPDHLKITIKEFLLSSFQQLCFAQRVSDHFTNLF 62

Query:    47 NPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGR--EETS-LHASRFKAD-------DYEEV 96
             +PY+EI F E    +F  N+A+S I +YL  +  ++T  L  S+ K         +  +V
Sbjct:    63 SPYVEIHFPESDEYSF--NQAFSAIDTYLDSKATDKTKHLRGSQVKESKGLVLKRNEAKV 120

Query:    97 SDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGK 156
              DEYKG  VWW   ++V          G+   R+Y LTFH R R LIT  Y+  V+EEGK
Sbjct:   121 RDEYKGANVWW---ERVVDND------GN---RYYKLTFHNRARTLITNSYIKYVVEEGK 168

Query:   157 AIAVRNRQRKLYKNVPCQAWY--EKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTE 214
             +I V+N+Q +L+ N     W   +  W  + FEHPA+F TLAM              F+ 
Sbjct:   169 SIIVKNKQTRLFTNNLSTQWVFGQNMWRSIEFEHPASFQTLAMDPKKKEEIVNDLIAFSN 228

Query:   215 GKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLV 274
             GKEYY KIGKAWKRGYLL+GPPGTGKSTMI+AMAN LNY++YDLELT+V+NN+EL+ LL 
Sbjct:   229 GKEYYKKIGKAWKRGYLLYGPPGTGKSTMISAMANLLNYNIYDLELTAVKNNSELKKLLT 288

Query:   275 DISSK 279
               SSK
Sbjct:   289 ATSSK 293

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2128916 AT4G30250 [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.1e-67, Sum P(3) = 1.1e-67
 Identities = 81/195 (41%), Positives = 114/195 (58%)

Query:    88 FKADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEY 147
             F   + + ++D + GV + W       +     + P   ++R +TL  +KR + L+   Y
Sbjct:   104 FGLSNNDRITDVFNGVTILWEHVVVQRQVQSFSWRPMPEEKRGFTLQINKRDKALVLDSY 163

Query:   148 VNQVLEEGKAIAVRNRQRKLYKN---VPCQAWYEKKWSHVYFEHPATFDTLAMASXXXXX 204
             ++ ++ + + I  RN +R LY N   V   A     W  V F+HP+TFDTLAM       
Sbjct:   164 LDYIVGKSEEIRRRNEERLLYTNSRGVSLDA-RSHPWDSVRFKHPSTFDTLAMDPEKKKR 222

Query:   205 XXXXXXXFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE 264
                    F  G+ +Y K G+AWKRGYLL+GPPGTGKS++IAAMAN L YD+YDLELT V+
Sbjct:   223 IMEDLREFANGQGFYQKTGRAWKRGYLLYGPPGTGKSSLIAAMANYLGYDIYDLELTEVQ 282

Query:   265 NNNELRSLLVDISSK 279
             NN+ELR LL+  SSK
Sbjct:   283 NNSELRKLLMKTSSK 297

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

 Score = 368 (134.6 bits), Expect = 2.0e-67, Sum P(2) = 2.0e-67
 Identities = 89/288 (30%), Positives = 150/288 (52%)

Query:     8 SLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKA 67
             ++ S  A  +   ++ + ++P +   ++     +  S  +  +     EF    F  N+ 
Sbjct:    18 AVASVAAAAILARSVVQDYMPNEVHEYISHGFRRFFSYFSYQMTAVIEEFGG--FEHNQV 75

Query:    68 YSEIQSYLSGREETSLHASRF----KADDY-------EEVSDEYKGVRVWWVL-----GK 111
             +   ++YLS +   S    +     K  +Y       EEV D + GV++ W+L      K
Sbjct:    76 FEAAEAYLSTKISNSTRRIKVNKLEKQSNYSVTVERDEEVVDIFDGVKLSWILVCRHVDK 135

Query:   112 KVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRKLYKNV 171
             K  R P         + R Y L+F K+++ ++   Y+  V+E+  +I  + +  K++  V
Sbjct:   136 KDFRNPRDLNSTLKSEVRSYELSFRKKFKNMVLESYLPFVVEQAASIKQKFKTLKIF-TV 194

Query:   172 PCQAWYEKKWSHVYFEHPATFDTLAMASXXXXXXXXXXXXFTEGKEYYAKIGKAWKRGYL 231
                  Y  +W+ V  +HP+TF TLA+              F + K +Y ++GKAWKRGYL
Sbjct:   195 DS---YSVEWTSVTLDHPSTFRTLALDPEVKKNLVEDLDRFVQRKGFYGRVGKAWKRGYL 251

Query:   232 LFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
             L+GPPGTGKS++IAA+AN LN+D+YDL+LTS+ NN ELR LL+  +++
Sbjct:   252 LYGPPGTGKSSLIAAIANHLNFDIYDLDLTSLNNNAELRRLLMSTANR 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	431
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	3e-15
pfam14363	100	pfam14363, AAA_assoc, Domain associated at C-termi	2e-11
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	2e-10
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	6e-09
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	8e-09
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-08
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	9e-08
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	2e-07
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	8e-07
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-05
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	4e-05
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	4e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	5e-04
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	0.001
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	0.002
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	0.003
pfam13207	114	pfam13207, AAA_17, AAA domain	0.003
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	0.004

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

 Score = 71.5 bits (176), Expect = 3e-15
 Identities = 39/134 (29%), Positives = 56/134 (41%), Gaps = 31/134 (23%)

Query: 230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN--ELRSLLVDISSKKKKSN--- 284
            LL+GPPGTGK+T+  A+A  L     ++  + + +    E    L ++    KK     
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60

Query: 285 ----------------------VTLSGLLNCIGGLWSTCGGERIIVF-TTNHVDKLDPAL 321
                                   ++ LL  + G   T    ++IV   TN  DKLDPAL
Sbjct: 61  IFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGF--TSSLSKVIVIAATNRPDKLDPAL 118

Query: 322 IRRGRMDKHIEMPY 335
             RGR D+ IE P 
Sbjct: 119 -LRGRFDRIIEFPL 131

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

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

 Score = 60.3 bits (147), Expect = 2e-11
 Identities = 31/103 (30%), Positives = 44/103 (42%), Gaps = 20/103 (19%)

Query: 26  HIPRQA-WYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLH 84
            +P +   Y          S  +PYL I   E+  + F RN+ Y   ++YLS +   S  
Sbjct: 1   LLPHELREYLSSLLRRLFGSRFSPYLTIVIDEY--DGFSRNQLYDAAEAYLSTK--ISPS 56

Query: 85  ASRFKA---------------DDYEEVSDEYKGVRVWWVLGKK 112
           A R KA               DD EEV+D ++GV+VWW     
Sbjct: 57  ARRLKASKAKKSKNSSLVLSLDDGEEVTDVFEGVKVWWTSVVT 99

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

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

 Score = 62.5 bits (152), Expect = 2e-10
 Identities = 64/264 (24%), Positives = 106/264 (40%), Gaps = 56/264 (21%)

Query: 184 VYFEHPA-TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKST 242
           V FE    T D +    + KE +K+ +    +  E + K+G    +G LL+GPPGTGK T
Sbjct: 232 VLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGK-T 290

Query: 243 MIA-AMANCLNY--------DVYDLELTSVENN------------------NEL------ 269
           ++A A+A             ++    +   E N                  +E+      
Sbjct: 291 LLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASG 350

Query: 270 RSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVF-TTNHVDKLDPALIRRGRMD 328
           R    D S ++         LL  + G+      E ++V   TN  D LDPAL+R GR D
Sbjct: 351 RGPSEDGSGRRVVGQ-----LLTELDGI---EKAEGVLVIAATNRPDDLDPALLRPGRFD 402

Query: 329 KHIEMP----YCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDI-TPADVAE-----NL 378
           + I +P        E FK+  ++     + ++  ++  L   T+  + AD+A       L
Sbjct: 403 RLIYVPLPDLEERLEIFKIHLRDKKPPLAEDV--DLEELAEITEGYSGADIAALVREAAL 460

Query: 379 MPKSDEDDAGTCLKNLIEALKAAK 402
               +       L + ++ALK  K
Sbjct: 461 EALREARRREVTLDDFLDALKKIK 484

Length = 494

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

 Score = 57.1 bits (138), Expect = 6e-09
 Identities = 50/169 (29%), Positives = 75/169 (44%), Gaps = 46/169 (27%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN--------- 252
           +EA++  L       E Y +IG    RG LL+GPPGTGK+ +  A+A+            
Sbjct: 158 REAVELPLTCP----ELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGS 213

Query: 253 --------------YDVYDLELTSVENNNELRSLLVD----ISSKK--------KKSNVT 286
                          DV+ L   + EN   +  + +D    I++K+        ++    
Sbjct: 214 EFVQKYLGEGPRMVRDVFRL---ARENAPSI--IFIDEVDSIATKRFDAQTGADREVQRI 268

Query: 287 LSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPY 335
           L  LLN + G   T   + I+   TN  D LDPAL+R GR+D+ IE P 
Sbjct: 269 LLELLNQMDGFDQTTNVKVIM--ATNRADTLDPALLRPGRLDRKIEFPL 315

Length = 398

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score = 57.1 bits (138), Expect = 8e-09
 Identities = 49/163 (30%), Positives = 73/163 (44%), Gaps = 36/163 (22%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL--- 258
           KEA++  L       E Y  IG    +G +L+GPPGTGK+ +  A+AN  +     +   
Sbjct: 196 KEAVELPLTH----PELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGS 251

Query: 259 ---------------ELTSVENNNELRSLLVD----ISSKKKKSNV--------TLSGLL 291
                          EL  V   N    + +D    I +K+  +          T+  LL
Sbjct: 252 ELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELL 311

Query: 292 NCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
           N + G  S   G+  ++  TN ++ LDPALIR GR+D+ IE P
Sbjct: 312 NQLDGFDSR--GDVKVIMATNRIESLDPALIRPGRIDRKIEFP 352

Length = 438

>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 = 53.7 bits (129), Expect = 1e-08
 Identities = 28/133 (21%), Positives = 43/133 (32%), Gaps = 24/133 (18%)

Query: 227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLLVDISS----- 278
            +  LL+GPPGTGK+T+  A+AN L         L  + +     +  L           
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78

Query: 279 -KKKKSNVTL-------------SGLLNCIGGL--WSTCGGERIIVFTTNHVDKLDPALI 322
             +K     L             + LL  +  L           ++  TN     D    
Sbjct: 79  LAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRA 138

Query: 323 RRGRMDKHIEMPY 335
              R+D  I +P 
Sbjct: 139 LYDRLDIRIVIPL 151

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|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 54.1 bits (130), Expect = 9e-08
 Identities = 45/162 (27%), Positives = 73/162 (45%), Gaps = 32/162 (19%)

Query: 202 KEAIKK--DLIKF-TEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL 258
           KEA +K  ++++   +  E +  +G    +G LL+GPPGTGK+ +  A+AN        +
Sbjct: 184 KEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI 243

Query: 259 ---ELTSV---ENNNELRSLL---------------VDISSKKKKSNV------TLSGLL 291
              E+ S    E+   LR +                +D  + K++          ++ LL
Sbjct: 244 NGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLL 303

Query: 292 NCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
             + GL     G  I++  TN  D LDPAL R GR D+ I +
Sbjct: 304 TLMDGLKGR--GRVIVIGATNRPDALDPALRRPGRFDREIVI 343

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

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

 Score = 53.1 bits (128), Expect = 2e-07
 Identities = 47/178 (26%), Positives = 73/178 (41%), Gaps = 47/178 (26%)

Query: 191 TFDTLA-MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN 249
           TF  +A +   K+E   ++++ F +  E +  +G    +G LL GPPGTGK+ +  A+A 
Sbjct: 181 TFRDIAGIEEAKEEF--EEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG 238

Query: 250 CLNYDVYDLELTSVENNNELRSLLVDISS-------KKKKSNV----------------- 285
                 +     S+   +E   + V + +       KK K N                  
Sbjct: 239 EAEVPFF-----SIS-GSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG 292

Query: 286 ------------TLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHI 331
                       TL+ LL  + G     G   I++  TN VD LD AL+R GR D+ I
Sbjct: 293 AGIGGGNDEREQTLNQLLTEMDGFKGNKG--VIVIAATNRVDILDAALLRPGRFDRQI 348

Length = 638

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 52.5 bits (126), Expect = 2e-07
 Identities = 44/166 (26%), Positives = 73/166 (43%), Gaps = 32/166 (19%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT 261
           +EA++  L       E + ++G    +G LL+GPPGTGK+ +  A+A+  N     +  +
Sbjct: 135 REAVELPLKH----PELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGS 190

Query: 262 SVENN--NELRSLLVDIS--SKKKKSNVTLSGLLNCIGG--LWSTCGGER---------- 305
            +      E   L+ +I   +K+K  ++     ++ I      S   G+R          
Sbjct: 191 ELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLL 250

Query: 306 ------------IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFE 339
                        ++  TN  D LDPAL+R GR D+ IE+P   FE
Sbjct: 251 AELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFE 296

Many proteins may score above the trusted cutoff because an internal. Length = 364

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

 Score = 48.1 bits (114), Expect = 8e-07
 Identities = 32/145 (22%), Positives = 46/145 (31%), Gaps = 38/145 (26%)

Query: 227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNE------------------ 268
               L+ GPPG+GK+T+  A+A  L      +     E+  E                  
Sbjct: 2   GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61

Query: 269 ------------LRSLLVDI-------SSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVF 309
                        R L  D+       S    +    L  L      L         ++ 
Sbjct: 62  SGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVIL 121

Query: 310 TTNHVDKLDPALIRRGRMDKHIEMP 334
           TTN    L PAL+RR R D+ I + 
Sbjct: 122 TTNDEKDLGPALLRR-RFDRRIVLL 145

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

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

 Score = 47.6 bits (113), Expect = 1e-05
 Identities = 49/177 (27%), Positives = 80/177 (45%), Gaps = 38/177 (21%)

Query: 203 EAIKKDLIKFTE----GKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN--CLNY-DV 255
           E +K++L +  E      E + K+G    +G LLFGPPGTGK+ +  A+A     N+  V
Sbjct: 459 EEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAV 518

Query: 256 YDLELTSV---ENNNELRSLL---------------VDISSKKK----KSNVT---LSGL 290
              E+ S    E+   +R +                +D  +  +     ++VT   ++ L
Sbjct: 519 RGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQL 578

Query: 291 LNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPY----CCFEAFKV 343
           L  + G+        +++  TN  D LDPAL+R GR D+ I +P        E FK+
Sbjct: 579 LTEMDGIQELSN--VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKI 633

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

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score = 45.8 bits (108), Expect = 4e-05
 Identities = 43/172 (25%), Positives = 75/172 (43%), Gaps = 35/172 (20%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC 250
           TF  +A   + KE +  +L+++      + K+G    +G L+ GPPGTGK+ +  A+A  
Sbjct: 150 TFADVAGCDEAKEEVA-ELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 208

Query: 251 LNYDVYDL------ELTSVENNNELRSLL---------------VDISSKKKKSNV---- 285
                + +      E+      + +R +                +D   +++ + +    
Sbjct: 209 AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGH 268

Query: 286 -----TLSGLLNCIGGLWSTCGGERIIVF-TTNHVDKLDPALIRRGRMDKHI 331
                TL+ +L  + G     G E IIV   TN  D LDPAL+R GR D+ +
Sbjct: 269 DEREQTLNQMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQV 317

Length = 644

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 45.3 bits (108), Expect = 4e-05
 Identities = 15/29 (51%), Positives = 19/29 (65%)

Query: 307 IVFTTNHVDKLDPALIRRGRMDKHIEMPY 335
           ++  TN  D LDPAL+R GR D+ IE P 
Sbjct: 293 VIMATNRPDILDPALLRPGRFDRKIEFPL 321

Length = 406

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

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 9/70 (12%)

Query: 189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           P T   +    K KE +++ +  + +GK          K+  LL+GPPG GK+++  A+A
Sbjct: 10  PKTLSDVVGNEKAKEQLREWIESWLKGKP---------KKALLLYGPPGVGKTSLAHALA 60

Query: 249 NCLNYDVYDL 258
           N   ++V +L
Sbjct: 61  NDYGWEVIEL 70

Length = 482

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 41.7 bits (99), Expect = 5e-04
 Identities = 16/30 (53%), Positives = 22/30 (73%), Gaps = 1/30 (3%)

Query: 305 RIIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
           +II   TN +D LDPA++R GR D+ IE+P
Sbjct: 272 KIIA-ATNRIDILDPAILRPGRFDRIIEVP 300

Length = 389

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 40.2 bits (95), Expect = 0.001
 Identities = 20/49 (40%), Positives = 32/49 (65%), Gaps = 6/49 (12%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMAN 249
           +EA++  L K     E + ++G    +G LL+GPPGTGK T++A A+A+
Sbjct: 144 REAVELPLKK----PELFEEVGIEPPKGVLLYGPPGTGK-TLLAKAVAH 187

Length = 389

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 2/55 (3%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIA 245
           TF  +A   + KE +  +++ F +    + K+G    +G LL GPPGTGK T++A
Sbjct: 53  TFKDVAGIDEAKEELM-EIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGK-TLLA 105

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 [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 17/34 (50%), Positives = 25/34 (73%), Gaps = 2/34 (5%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMAN 249
           E + ++G    +G LL+GPPGTGK T++A A+AN
Sbjct: 175 ELFEELGIDPPKGVLLYGPPGTGK-TLLAKAVAN 207

Length = 406

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

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 13/30 (43%), Positives = 18/30 (60%)

Query: 230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE 259
            L+ GPPG+GKST+   +A  L   V  L+
Sbjct: 2   ILITGPPGSGKSTLAKKLAEKLGIPVISLD 31

Length = 114

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

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 50/224 (22%), Positives = 77/224 (34%), Gaps = 42/224 (18%)

Query: 228 RGYLLFGPPGTGKSTMIAAMANC----LNYDV--------------YDLELTSVENNNEL 269
           +G LL GPPGTGK+ +  A+AN     L+ +                       E     
Sbjct: 19  KGVLLHGPPGTGKTLLARALANEGAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPS 78

Query: 270 RSLLVDISSKKKKSNVTLSGLLNCI-----GGLWSTCGGERIIVFTTNHVDKLDPALIRR 324
              + +I +   K +     +   +       +     G+ I++  TN  D LDPA  R 
Sbjct: 79  IIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGLKRGQVIVIGATNRPDGLDPAKRRP 138

Query: 325 GRMDKHIEMPYCCFEAFKVLAKNYLEIE-SHELFHEIGSLLGETDITPADVAENLMPKSD 383
           GR D+ IE+               LEI   H     +G        T   +A   + KS 
Sbjct: 139 GRFDREIEVN-------LPDEAGRLEILQIHTRLMFLGP-----PGTGKTLAARTVGKSG 186

Query: 384 EDDAGTCLKNLI-EALKAAKEKAKKNAGEEAELKAEEANGSIAK 426
            D     L  L  EA      +A    GE   +  ++   ++ K
Sbjct: 187 AD-----LGALAKEAALRELRRAIDLVGEYIGVTEDDFEEALKK 225

Length = 494

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	431
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	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.98
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.98
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.98
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.97
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.97
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.97
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.97
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.97
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.96
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.96
CHL00195	489	ycf46 Ycf46; Provisional	99.96
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.96
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.96
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.96
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.96
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.95
CHL00176	638	ftsH cell division protein; Validated	99.95
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.95
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.95
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.95
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.94
CHL00206	2281	ycf2 Ycf2; Provisional	99.93
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.93
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.91
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.91
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.91
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.91
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.91
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.9
PF14363	98	AAA_assoc: Domain associated at C-terminal with AA	99.79
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.78
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.76
PF00004	132	AAA: ATPase family associated with various cellula	99.68
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.67
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.62
CHL00181	287	cbbX CbbX; Provisional	99.62
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.61
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.61
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.58
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.57
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.57
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.55
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK04195	482	replication factor C large subunit; Provisional	99.55
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.55
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.54
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.53
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.51
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.5
PHA02544	316	44 clamp loader, small subunit; Provisional	99.5
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.49
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.48
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.48
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.48
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.48
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.47
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.47
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.47
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.47
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.46
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.46
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.45
PLN03025	319	replication factor C subunit; Provisional	99.45
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.44
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.44
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.43
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.43
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.42
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.42
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.42
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.41
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.4
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.4
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.4
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.4
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.39
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.39
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.38
PRK13342	413	recombination factor protein RarA; Reviewed	99.38
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.35
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.35
PRK12402	337	replication factor C small subunit 2; Reviewed	99.32
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.31
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.31
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.3
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.3
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.28
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.28
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.26
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.26
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.25
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.24
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.23
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.21
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.2
PRK13341	725	recombination factor protein RarA/unknown domain f	99.2
PRK06893	229	DNA replication initiation factor; Validated	99.19
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.16
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.16
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.14
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.14
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.13
COG0714	329	MoxR-like ATPases [General function prediction onl	99.12
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.12
PRK10865	857	protein disaggregation chaperone; Provisional	99.12
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.11
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.11
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.1
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.09
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.08
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.07
PRK10865	857	protein disaggregation chaperone; Provisional	99.07
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.07
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.06
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.05
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.05
KOG2028	554	consensus ATPase related to the helicase subunit o	99.05
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.04
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.03
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.0
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.0
PRK08084	235	DNA replication initiation factor; Provisional	98.99
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.99
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.99
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.99
CHL00095	821	clpC Clp protease ATP binding subunit	98.98
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.98
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.97
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.97
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.97
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.95
CHL00095	821	clpC Clp protease ATP binding subunit	98.94
PF07726	131	AAA_3: ATPase family associated with various cellu	98.93
PHA02244	383	ATPase-like protein	98.92
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.92
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.87
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.87
PRK08727	233	hypothetical protein; Validated	98.86
PRK05642	234	DNA replication initiation factor; Validated	98.85
PRK06620	214	hypothetical protein; Validated	98.83
PRK12422	445	chromosomal replication initiation protein; Provis	98.82
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.8
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.8
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.79
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.72
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.71
PRK13531	498	regulatory ATPase RavA; Provisional	98.7
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.7
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.7
smart00382	148	AAA ATPases associated with a variety of cellular	98.69
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.69
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.68
PRK09087	226	hypothetical protein; Validated	98.67
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.66
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.65
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.64
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.64
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.61
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.6
PRK07952	244	DNA replication protein DnaC; Validated	98.59
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.57
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.56
smart00350	509	MCM minichromosome maintenance proteins.	98.55
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.54
PRK04132	846	replication factor C small subunit; Provisional	98.53
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.53
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.53
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.52
PRK08116	268	hypothetical protein; Validated	98.51
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.49
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.48
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.44
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.44
PF08740	187	BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA A	98.43
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.43
PRK08939	306	primosomal protein DnaI; Reviewed	98.43
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	98.39
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.39
PRK08181	269	transposase; Validated	98.38
PHA02624	647	large T antigen; Provisional	98.38
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.36
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.31
PRK12377	248	putative replication protein; Provisional	98.29
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.28
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.25
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.24
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	98.19
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.17
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.16
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.16
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.14
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.13
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	98.12
PRK06526	254	transposase; Provisional	98.12
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.12
PRK06835	329	DNA replication protein DnaC; Validated	98.11
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.09
PRK07261	171	topology modulation protein; Provisional	98.09
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.07
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.07
PRK08118	167	topology modulation protein; Reviewed	98.07
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.06
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.05
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.04
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.03
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.02
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.0
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.0
PRK00131	175	aroK shikimate kinase; Reviewed	97.98
PRK09862	506	putative ATP-dependent protease; Provisional	97.98
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.97
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.97
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	97.96
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	97.9
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.89
PRK15455	644	PrkA family serine protein kinase; Provisional	97.89
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.87
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	97.84
) 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	97.83
PRK09183	259	transposase/IS protein; Provisional	97.82
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	97.81
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	97.81
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.8
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	97.79
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	97.78
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.76
PRK13947	171	shikimate kinase; Provisional	97.76
PRK03839	180	putative kinase; Provisional	97.75
PRK00625	173	shikimate kinase; Provisional	97.74
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	97.74
PTZ00202	550	tuzin; Provisional	97.73
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.73
PLN02199	303	shikimate kinase	97.72
PRK13949	169	shikimate kinase; Provisional	97.72
PRK07276	290	DNA polymerase III subunit delta'; Validated	97.71
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.71
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.7
PF13173	128	AAA_14: AAA domain	97.69
PTZ00088	229	adenylate kinase 1; Provisional	97.69
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.65
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.65
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	97.63
PRK00279	215	adk adenylate kinase; Reviewed	97.63
PRK13948	182	shikimate kinase; Provisional	97.63
PRK08233	182	hypothetical protein; Provisional	97.61
PRK06921	266	hypothetical protein; Provisional	97.61
PF05729	166	NACHT: NACHT domain	97.59
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.59
PRK14532	188	adenylate kinase; Provisional	97.58
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.57
PRK06217	183	hypothetical protein; Validated	97.57
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.57
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.56
COG0606	490	Predicted ATPase with chaperone activity [Posttran	97.56
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.55
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	97.55
PRK14531	183	adenylate kinase; Provisional	97.55
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	97.55
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.54
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.54
PRK13946	184	shikimate kinase; Provisional	97.53
PRK04040	188	adenylate kinase; Provisional	97.53
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.53
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.52
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.5
PRK05057	172	aroK shikimate kinase I; Reviewed	97.49
PRK13765	637	ATP-dependent protease Lon; Provisional	97.48
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	97.48
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.48
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.47
PRK03731	171	aroL shikimate kinase II; Reviewed	97.44
PRK14529	223	adenylate kinase; Provisional	97.44
PRK15115	444	response regulator GlrR; Provisional	97.44
PRK06762	166	hypothetical protein; Provisional	97.4
PRK14530	215	adenylate kinase; Provisional	97.4
PRK13808	333	adenylate kinase; Provisional	97.39
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.39
PLN02674	244	adenylate kinase	97.39
PHA00729	226	NTP-binding motif containing protein	97.38
PHA02774	613	E1; Provisional	97.37
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	97.37
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.36
PRK02496	184	adk adenylate kinase; Provisional	97.35
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	97.35
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	97.35
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.33
PF13245	76	AAA_19: Part of AAA domain	97.33
PRK14528	186	adenylate kinase; Provisional	97.33
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.32
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.32
PRK14737	186	gmk guanylate kinase; Provisional	97.31
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.3
PRK06547	172	hypothetical protein; Provisional	97.3
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	97.28
PLN02200	234	adenylate kinase family protein	97.27
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.25
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.23
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	97.22
PRK14527	191	adenylate kinase; Provisional	97.21
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.18
PRK04182	180	cytidylate kinase; Provisional	97.18
PRK09825	176	idnK D-gluconate kinase; Provisional	97.16
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.16
COG2204	464	AtoC Response regulator containing CheY-like recei	97.16
PLN02459	261	probable adenylate kinase	97.15
PRK01184	184	hypothetical protein; Provisional	97.15
COG1855	604	ATPase (PilT family) [General function prediction	97.14
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.12
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.1
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	97.08
PRK14526	211	adenylate kinase; Provisional	97.06
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.05
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.05
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.05
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.04
PHA02530	300	pseT polynucleotide kinase; Provisional	97.03
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.03
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.0
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.99
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.99
PRK06696	223	uridine kinase; Validated	96.99
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.98
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.98
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.98
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.95
PRK04220	301	2-phosphoglycerate kinase; Provisional	96.94
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.93
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	96.93
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.92
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.88
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.88
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.86
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.86
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.84
TIGR00152	188	dephospho-CoA kinase. This model produces scores i	96.82
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	96.81
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.8
COG4650	531	RtcR Sigma54-dependent transcription regulator con	96.8
PRK06851	367	hypothetical protein; Provisional	96.79
PRK06851	367	hypothetical protein; Provisional	96.79
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.78
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.78
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.78
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.78
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.77
PRK05541	176	adenylylsulfate kinase; Provisional	96.76
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	96.76
PRK10365	441	transcriptional regulatory protein ZraR; Provision	96.74
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.74
PRK13764	602	ATPase; Provisional	96.73
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.73
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.73
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	96.72
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.72
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.72
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.72
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.71
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.71
PRK00889	175	adenylylsulfate kinase; Provisional	96.7
PRK12338	319	hypothetical protein; Provisional	96.68
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.68
PRK06067	234	flagellar accessory protein FlaH; Validated	96.68
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.68
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.67
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.66
PLN02165	334	adenylate isopentenyltransferase	96.65
COG1485	367	Predicted ATPase [General function prediction only	96.65
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.64
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.64
COG3265	161	GntK Gluconate kinase [Carbohydrate transport and	96.61
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.6
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.59
PRK05973	237	replicative DNA helicase; Provisional	96.57
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.57
PRK14730	195	coaE dephospho-CoA kinase; Provisional	96.56
PRK12337	475	2-phosphoglycerate kinase; Provisional	96.56
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.56
PRK05439	311	pantothenate kinase; Provisional	96.55
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.54
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.53
PRK11545	163	gntK gluconate kinase 1; Provisional	96.53
PRK13975	196	thymidylate kinase; Provisional	96.53
PTZ00301	210	uridine kinase; Provisional	96.49
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.48
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	96.48
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.47
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.45
PTZ00035	337	Rad51 protein; Provisional	96.44
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.42
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.42
PRK09354	349	recA recombinase A; Provisional	96.41
PRK10416	318	signal recognition particle-docking protein FtsY;	96.41
PRK00300	205	gmk guanylate kinase; Provisional	96.41
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.4
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.38
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.38
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	96.38
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.37
PRK06581	263	DNA polymerase III subunit delta'; Validated	96.37
PRK13951	488	bifunctional shikimate kinase/3-dehydroquinate syn	96.36
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	96.36
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	96.36
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.36
PRK08356	195	hypothetical protein; Provisional	96.36
PRK06761	282	hypothetical protein; Provisional	96.35
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	96.35
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.34
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	96.33
PRK10867	433	signal recognition particle protein; Provisional	96.32
PRK00023	225	cmk cytidylate kinase; Provisional	96.31
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.31
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.31
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.3
PRK05480	209	uridine/cytidine kinase; Provisional	96.3
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.29
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.28
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.28
PRK04328	249	hypothetical protein; Provisional	96.27
PLN02842	505	nucleotide kinase	96.27
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.26
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.26
PF01202	158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	96.26
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.25
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.23
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.23
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.23
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.22
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	96.2
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.2
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.19
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	96.19
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.19
PRK14738	206	gmk guanylate kinase; Provisional	96.18
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.17
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.17
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.17
COG4133	209	CcmA ABC-type transport system involved in cytochr	96.16
PRK10646	153	ADP-binding protein; Provisional	96.15
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.14
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.14
PRK14974	336	cell division protein FtsY; Provisional	96.11
PLN02840	421	tRNA dimethylallyltransferase	96.08
PRK14733	204	coaE dephospho-CoA kinase; Provisional	96.07
PTZ00494	664	tuzin-like protein; Provisional	96.06
PRK11823	446	DNA repair protein RadA; Provisional	96.04
PRK03846	198	adenylylsulfate kinase; Provisional	96.04
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.04
PF06431	417	Polyoma_lg_T_C: Polyomavirus large T antigen C-ter	96.03
COG3378	517	Phage associated DNA primase [General function pre	96.01
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.94
TIGR00376	637	DNA helicase, putative. The gene product may repre	95.94
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	95.93
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	95.93
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.91
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.89
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.88
PF13479	213	AAA_24: AAA domain	95.88
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	95.88
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.87
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.87
TIGR00959	428	ffh signal recognition particle protein. This mode	95.87
COG1241	682	MCM2 Predicted ATPase involved in replication cont	95.86
TIGR02533	486	type_II_gspE general secretory pathway protein E.	95.85
PRK14731	208	coaE dephospho-CoA kinase; Provisional	95.82
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.81
PRK12608	380	transcription termination factor Rho; Provisional	95.75
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	95.74
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.73
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.7
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	95.7
PRK13477	512	bifunctional pantoate ligase/cytidylate kinase; Pr	95.68
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	95.67
PRK07667	193	uridine kinase; Provisional	95.67
PF07931	174	CPT: Chloramphenicol phosphotransferase-like prote	95.66
PRK03333	395	coaE dephospho-CoA kinase/protein folding accessor	95.66
PRK10536	262	hypothetical protein; Provisional	95.66
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.65
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.64
COG0324	308	MiaA tRNA delta(2)-isopentenylpyrophosphate transf	95.62
PRK13973	213	thymidylate kinase; Provisional	95.61
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	95.58
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.56
PRK09302	509	circadian clock protein KaiC; Reviewed	95.54
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.48
COG4178	604	ABC-type uncharacterized transport system, permeas	95.46

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

Probab=100.00  E-value=2.5e-90  Score=687.03  Aligned_cols=402  Identities=49%  Similarity=0.771  Sum_probs=370.2

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHhccccCCceEEEEEeecCCCCCcchhHHHHHHHhcCCCCCC
Q 035603            3 GETWGSLGSTLATFMFVFAMFKQHIPRQAWYFLEKHCHKLVSLLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETS   82 (431)
Q Consensus         3 ~~~~~~~~S~~a~~m~~~~~~~~~~p~~l~~~l~~~~~~l~~~~~~~~ti~i~e~~~~~~~~~~~y~~~~~yls~~~~~~   82 (431)
                      +.+|+.+||.+|++||+|+|+++++|..++.|+.++.++|++++++|.++++.|+.+  +.+|++|.+++.||+++.  +
T Consensus         1 ~~~~~~~~s~~~~~~~~~~~~~~~~p~~~~~y~~~~~~~l~g~~s~~~~~~~~e~~g--~~~n~~~~aie~yl~~k~--~   76 (457)
T KOG0743|consen    1 SSVFTAYASLLGSLMFIKSMLQDIIPPSINPYFISALRGLFGVFSSYALIRIGEQDG--VFRNQLYVAIEVYLSSKS--S   76 (457)
T ss_pred             CCccchhHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHhhccCcccEEEEeehhcc--chHHHHHHHHHHhhhccc--h
Confidence            368999999999999999999999999999999999999999999999999999854  889999999999999998  6


Q ss_pred             CCccceE-------------ecCCCceeeeecCeEEEEEEeeccCCCCceeecCCCCCceEEEEEEeccchhhhhhhhHH
Q 035603           83 LHASRFK-------------ADDYEEVSDEYKGVRVWWVLGKKVPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVN  149 (431)
Q Consensus        83 ~~~~~l~-------------~~~~~~~~d~f~g~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~~yl~  149 (431)
                      +.+.+++             ++++++|.|+|+|++++|.+....++.+.+.  +...++|+|+|+|+++||++|+.+||+
T Consensus        77 ~~~~rl~~~~~~~s~~~~l~~~~~~~i~d~f~gv~~~w~~~~~~~~~~~~~--~~~~~~r~~~L~f~k~~~e~V~~syl~  154 (457)
T KOG0743|consen   77 AIAKRLTQNLSKNSKSLVLGLDDNEEISDEFEGVPVKWRHFVDYNEKWIFV--EREREKRYFELTFHKKPRELVTLSYLP  154 (457)
T ss_pred             hhhhhhhhhhccccccceEEecCCcEEEEEEeceEEEEEEEEEecCccccc--ccCCcceEEEEEecCccHHHhHHhHHH
Confidence            6665544             6889999999999999999998776655443  556678999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccceeeccCCcccc---CCcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC
Q 035603          150 QVLEEGKAIAVRNRQRKLYKNVPCQAWY---EKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW  226 (431)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~  226 (431)
                      |+..++++|..+++++++|+++++..|.   +..|++++|+||++|++|++++++|+.|++|+..|++++++|+++|+||
T Consensus       155 ~v~~~~k~I~~~~r~~kl~t~~~~~~~~~~~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkaw  234 (457)
T KOG0743|consen  155 YVVSKAKEILEENRELKLYTNSGKTVIYTAKGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAW  234 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCCCcccccccCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcch
Confidence            9999999999999999999999776553   6799999999999999999999999999999999999999999999999


Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc------------------------c--
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK------------------------K--  280 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~------------------------~--  280 (431)
                      +|||||||||||||||++.|||++|+++||+++++++..+++|++++..+.++                        .  
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~  314 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFDLRERRKKKKENFEG  314 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccccccccccccccccC
Confidence            99999999999999999999999999999999999999999999999988776                        0  


Q ss_pred             cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhc-chhHHH
Q 035603          281 KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES-HELFHE  359 (431)
Q Consensus       281 ~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~-~~~~~~  359 (431)
                      ..+.+++|+|||++||+||+||+++||||||||+|+|||||+||||||+||+|++|++++++.|+++||+... |.++++
T Consensus       315 ~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~e  394 (457)
T KOG0743|consen  315 DLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDE  394 (457)
T ss_pred             CcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCCcchhHH
Confidence            1345899999999999999999999999999999999999999999999999999999999999999999874 999999


Q ss_pred             HHhHhccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHhhhchh
Q 035603          360 IGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEE  412 (431)
Q Consensus       360 i~~l~~~~~~s~adI~~~l~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~  412 (431)
                      |+++..++.+|||||++.+|.  +..|++.|++.++++++.++.+..+...+.
T Consensus       395 ie~l~~~~~~tPA~V~e~lm~--~~~dad~~lk~Lv~~l~~~~~~~~~~~~~~  445 (457)
T KOG0743|consen  395 IERLIEETEVTPAQVAEELMK--NKNDADVALKGLVEALESKKEKRNKDDKEL  445 (457)
T ss_pred             HHHHhhcCccCHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhhhhccchhhh
Confidence            999999999999999999996  333999999999999999987666544444

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

Probab=100.00  E-value=6.6e-41  Score=324.11  Aligned_cols=213  Identities=23%  Similarity=0.319  Sum_probs=178.6

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      -.+|++|+|.++++++|.+.+..++.+|+.|.++|+.+|+|+|||||||||||+||+|+|++.+..|+.+..+++     
T Consensus       147 dvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYi  226 (406)
T COG1222         147 DVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYI  226 (406)
T ss_pred             CCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHh
Confidence            389999999999999999999999999999999999999999999999999999999999999999999998876     


Q ss_pred             -CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          264 -ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                       ++..-++++|.-+..+                        +..-++++-+||++|||+.+  .+++-|||+||+++.||
T Consensus       227 GEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~--~~nvKVI~ATNR~D~LD  304 (406)
T COG1222         227 GEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP--RGNVKVIMATNRPDILD  304 (406)
T ss_pred             ccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC--CCCeEEEEecCCccccC
Confidence             3445578888777655                        23447899999999999965  56699999999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHHHHH
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTCLKN  393 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~l~~  393 (431)
                      |||+||||||++|+||+|+.+.|+.|++.|.........-+++.++. ..|+|+|||+.+|..+.    ..+...+..++
T Consensus       305 PALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~D  384 (406)
T COG1222         305 PALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMED  384 (406)
T ss_pred             hhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhccCeecHHH
Confidence            99999999999999999999999999999987665444444556665 34999999998876421    11222345567


Q ss_pred             HHHHHHHHHH
Q 035603          394 LIEALKAAKE  403 (431)
Q Consensus       394 l~~~l~~~~~  403 (431)
                      |++|.++...
T Consensus       385 F~~Av~KV~~  394 (406)
T COG1222         385 FLKAVEKVVK  394 (406)
T ss_pred             HHHHHHHHHh
Confidence            7777766544

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

Probab=100.00  E-value=1.5e-37  Score=320.13  Aligned_cols=214  Identities=22%  Similarity=0.323  Sum_probs=183.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +..+|++|+|.+++|.+|.+.+..++.+++.|.++|+.+|+|+|||||||||||++|+|+|++.+++|+.+...++    
T Consensus       429 p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~  508 (693)
T KOG0730|consen  429 PNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKY  508 (693)
T ss_pred             CCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHh
Confidence            3489999999999999999999999999999999999999999999999999999999999999999999987765    


Q ss_pred             --CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          264 --ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                        +++..++++|..+...                     .+...+.+++||++|||+...  .+++||++||+|+.||+|
T Consensus       509 vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~--k~V~ViAATNRpd~ID~A  586 (693)
T KOG0730|consen  509 VGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEAL--KNVLVIAATNRPDMIDPA  586 (693)
T ss_pred             cCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHccccccc--CcEEEEeccCChhhcCHH
Confidence              4567799999887665                     234678999999999999654  459999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC------CCCCHHHHHHH
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS------DEDDAGTCLKN  393 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~------~~~~~~~~l~~  393 (431)
                      |+||||||..|++|+|+.+.|.+|++.++.........++.+|++. .|||+|||.++|..+.      .-+......++
T Consensus       587 LlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~a~~e~i~a~~i~~~h  666 (693)
T KOG0730|consen  587 LLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQEAALLALRESIEATEITWQH  666 (693)
T ss_pred             HcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHHHHHHHHHHhcccccccHHH
Confidence            9999999999999999999999999999987665555667888874 4999999999887521      22234455566


Q ss_pred             HHHHHHHHHH
Q 035603          394 LIEALKAAKE  403 (431)
Q Consensus       394 l~~~l~~~~~  403 (431)
                      +.++++..+.
T Consensus       667 f~~al~~~r~  676 (693)
T KOG0730|consen  667 FEEALKAVRP  676 (693)
T ss_pred             HHHHHHhhcc
Confidence            7677665553

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

Probab=100.00  E-value=2e-35  Score=296.60  Aligned_cols=189  Identities=23%  Similarity=0.352  Sum_probs=168.5

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      -.+|+||-|-++.|++|.+ +..|+++|..|.++|-..|+|+||.||||||||+||||+|++.+.||+....++.     
T Consensus       300 nv~F~dVkG~DEAK~ELeE-iVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~V  378 (752)
T KOG0734|consen  300 NVTFEDVKGVDEAKQELEE-IVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFV  378 (752)
T ss_pred             ccccccccChHHHHHHHHH-HHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhh
Confidence            3679999999999999865 8899999999999999999999999999999999999999999999999988875     


Q ss_pred             -CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          264 -ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                       .+...++++|..+..+                     ....+.++++||.+|||+..+.  ++|||++||.|+.||+||
T Consensus       379 GvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNe--GiIvigATNfpe~LD~AL  456 (752)
T KOG0734|consen  379 GVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNE--GIIVIGATNFPEALDKAL  456 (752)
T ss_pred             cccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCC--ceEEEeccCChhhhhHHh
Confidence             3568899999988776                     1145789999999999997654  599999999999999999


Q ss_pred             hccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcc
Q 035603          322 IRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMP  380 (431)
Q Consensus       322 lRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~  380 (431)
                      +||||||++|.+|.||...|.+|++.|+....+....++.-+++ +.||++||+++++.+
T Consensus       457 ~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlVNq  516 (752)
T KOG0734|consen  457 TRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLVNQ  516 (752)
T ss_pred             cCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHHHH
Confidence            99999999999999999999999999998766655555667777 559999999988765

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

Probab=100.00  E-value=3.5e-34  Score=291.63  Aligned_cols=191  Identities=21%  Similarity=0.298  Sum_probs=165.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +-++|++|++.++++.++...+..++++++.|+.+|+..|.|+|||||||||||.||+|+|++.|.+|+.+...++    
T Consensus       506 PdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkY  585 (802)
T KOG0733|consen  506 PDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKY  585 (802)
T ss_pred             CCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHH
Confidence            3489999999999999999999999999999999999999999999999999999999999999999999987765    


Q ss_pred             --CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          264 --ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                        +++..++.+|..+...                     ...+.+.+++||.+|||+....+  +.||++||+||.+|||
T Consensus       586 VGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~g--V~viaATNRPDiIDpA  663 (802)
T KOG0733|consen  586 VGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRG--VYVIAATNRPDIIDPA  663 (802)
T ss_pred             hhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccc--eEEEeecCCCcccchh
Confidence              4556799999988766                     34567899999999999976555  9999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcc--hhHHHHHhHhc---cCCCCHHHHHHHhcc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESH--ELFHEIGSLLG---ETDITPADVAENLMP  380 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~--~~~~~i~~l~~---~~~~s~adI~~~l~~  380 (431)
                      ++||||||..+++++|+.++|..|++........  ....+++.++.   -.|||+||++.++..
T Consensus       664 iLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvre  728 (802)
T KOG0733|consen  664 ILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVRE  728 (802)
T ss_pred             hcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHH
Confidence            9999999999999999999999999998873222  22223455554   349999999977753

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

Probab=100.00  E-value=7.5e-34  Score=300.55  Aligned_cols=213  Identities=24%  Similarity=0.337  Sum_probs=177.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      .+.+|+||+|.+++|++|.+ +..|+++|+.|.++|...|||+||+||||||||+||+|+|+|.|.||+.++.++.    
T Consensus       306 t~V~FkDVAG~deAK~El~E-~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~  384 (774)
T KOG0731|consen  306 TGVKFKDVAGVDEAKEELME-FVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMF  384 (774)
T ss_pred             CCCccccccCcHHHHHHHHH-HHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHh
Confidence            34889999999999999987 7789999999999999999999999999999999999999999999999999875    


Q ss_pred             --CChHHHHHHHHHhhhc-------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 --ENNNELRSLLVDISSK-------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~-------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                        ...+.++.+|..+...                         ......++++||.+|||+.+.  .++||+++||+++.
T Consensus       385 ~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~--~~vi~~a~tnr~d~  462 (774)
T KOG0731|consen  385 VGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETS--KGVIVLAATNRPDI  462 (774)
T ss_pred             cccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCC--CcEEEEeccCCccc
Confidence              3478899999887664                         223467999999999999765  55999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTC  390 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~  390 (431)
                      ||+||+||||||++|.++.|+...|.+|++.|+...... ...++..++. +.|+++|||+++|..+.    ........
T Consensus       463 ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~r~~~~~i~  542 (774)
T KOG0731|consen  463 LDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAARKGLREIG  542 (774)
T ss_pred             cCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHHHhccCccc
Confidence            999999999999999999999999999999999754432 3445566766 45999999998887521    22233345


Q ss_pred             HHHHHHHHHHHHH
Q 035603          391 LKNLIEALKAAKE  403 (431)
Q Consensus       391 l~~l~~~l~~~~~  403 (431)
                      ..++..++++...
T Consensus       543 ~~~~~~a~~Rvi~  555 (774)
T KOG0731|consen  543 TKDLEYAIERVIA  555 (774)
T ss_pred             hhhHHHHHHHHhc
Confidence            5666666664443

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

Probab=100.00  E-value=1e-33  Score=288.14  Aligned_cols=207  Identities=22%  Similarity=0.305  Sum_probs=173.8

Q ss_pred             eeccCC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          184 VYFEHP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       184 ~~~~~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      ..++++ .+|.+|+|.+....++.+.+.. +.+|+.|..+|+.++||+|||||||||||+||+|||++++.+|+.++..+
T Consensus       180 ~~~~~snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApe  258 (802)
T KOG0733|consen  180 LEFPESNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPE  258 (802)
T ss_pred             cCCCCCCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchh
Confidence            345554 6899999999999999886665 99999999999999999999999999999999999999999999999876


Q ss_pred             c------CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccC--CCCceEEEEecCC
Q 035603          263 V------ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWST--CGGERIIVFTTNH  313 (431)
Q Consensus       263 ~------~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~--~~~~~ivI~TTN~  313 (431)
                      +      +++..++++|.++.+.                     ....++.+++||+.||++...  .+..++||+|||+
T Consensus       259 ivSGvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnR  338 (802)
T KOG0733|consen  259 IVSGVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNR  338 (802)
T ss_pred             hhcccCcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCC
Confidence            5      4678899999998876                     234578999999999998654  3567999999999


Q ss_pred             CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccCCCCCHHHHHH
Q 035603          314 VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKSDEDDAGTCLK  392 (431)
Q Consensus       314 ~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~~~~~~~~~l~  392 (431)
                      ||.|||||.|+||||+.|.+..|+..+|..|++.......+...-++.+++.- -||.+||++.++..     .+..|++
T Consensus       339 PDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~-----Aa~vAik  413 (802)
T KOG0733|consen  339 PDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCRE-----AAFVAIK  413 (802)
T ss_pred             CcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHH-----HHHHHHH
Confidence            99999999999999999999999999999999998875544444445666663 39999999987763     3345555


Q ss_pred             HHHH
Q 035603          393 NLIE  396 (431)
Q Consensus       393 ~l~~  396 (431)
                      .+..
T Consensus       414 R~ld  417 (802)
T KOG0733|consen  414 RILD  417 (802)
T ss_pred             HHhh
Confidence            5433

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

Probab=99.98  E-value=2.2e-32  Score=284.48  Aligned_cols=190  Identities=23%  Similarity=0.277  Sum_probs=158.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +.++|+||+|.+++|.+|.+.+..++++++.|.. |...+.|+|||||||||||.+|+|+|.++.++|+.+...++    
T Consensus       667 PnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMY  745 (953)
T KOG0736|consen  667 PNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMY  745 (953)
T ss_pred             CccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHH
Confidence            3478999999999999999999999999999975 77778899999999999999999999999999999987765    


Q ss_pred             --CChHHHHHHHHHhhhc-----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK-----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~-----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                        ++++++|++|..+.+.                       .+...+.+|+||-+|||+...+...++||++||+||.||
T Consensus       746 VGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLD  825 (953)
T KOG0736|consen  746 VGQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLD  825 (953)
T ss_pred             hcchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccC
Confidence              5788999999988765                       345578999999999999865667799999999999999


Q ss_pred             hhhhccCceeEEEEcCCCC-HHHHHHHHHHhhchhcc---hhHHHHHhHhccCCCCHHHHHHHhc
Q 035603          319 PALIRRGRMDKHIEMPYCC-FEAFKVLAKNYLEIESH---ELFHEIGSLLGETDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~-~~~r~~i~~~~l~~~~~---~~~~~i~~l~~~~~~s~adI~~~l~  379 (431)
                      |||+||||||+.++++.+. .+.+..+++.....-..   ....+|++.|. .+||+||+=.+|-
T Consensus       826 pALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp-~~~TGADlYsLCS  889 (953)
T KOG0736|consen  826 PALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCP-PNMTGADLYSLCS  889 (953)
T ss_pred             hhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCC-cCCchhHHHHHHH
Confidence            9999999999999999985 55566666655443222   23334444443 5899999976665

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

Probab=99.98  E-value=2e-32  Score=253.44  Aligned_cols=191  Identities=26%  Similarity=0.339  Sum_probs=163.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +.++++-|+|.+.+.++|.+-+..+.++|+.|..+|++.|+|+|||||||||||.||+|+|++..+.|+.++.+++    
T Consensus       142 PDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~  221 (404)
T KOG0728|consen  142 PDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKY  221 (404)
T ss_pred             CccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHH
Confidence            3478999999999999999999999999999999999999999999999999999999999999999999999876    


Q ss_pred             --CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        ++..-++++|.-+...                        +....+++-.|||.+||+...  .++-|||+||+.+.|
T Consensus       222 igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeat--knikvimatnridil  299 (404)
T KOG0728|consen  222 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEAT--KNIKVIMATNRIDIL  299 (404)
T ss_pred             hhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccc--cceEEEEeccccccc
Confidence              3344567787655432                        223467899999999999765  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMP  380 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~  380 (431)
                      ||||+||||+|++|+||+|+.++|.+|++.+-........-+++.+++.. |.|+|+++..|..
T Consensus       300 d~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcte  363 (404)
T KOG0728|consen  300 DPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTE  363 (404)
T ss_pred             cHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhh
Confidence            99999999999999999999999999999887655433333466666644 9999999988764

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

Probab=99.98  E-value=4.4e-32  Score=251.45  Aligned_cols=192  Identities=25%  Similarity=0.364  Sum_probs=162.6

Q ss_pred             cCC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc--
Q 035603          187 EHP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV--  263 (431)
Q Consensus       187 ~~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~--  263 (431)
                      +.| .++.+|+|.+-+|++|.+.+..++.+.+.|+++|+.+|||+|||||||||||+|++|+|+.....|+.+..++.  
T Consensus       148 ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvq  227 (408)
T KOG0727|consen  148 EKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQ  227 (408)
T ss_pred             CCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHH
Confidence            445 88999999999999999999999999999999999999999999999999999999999999999999988865  


Q ss_pred             ----CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          264 ----ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       264 ----~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                          ++..-++.+|.-+...                        +....+.+-.|||.|||+...  .++-|||+||+.+
T Consensus       228 kylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~--~nvkvimatnrad  305 (408)
T KOG0727|consen  228 KYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQT--TNVKVIMATNRAD  305 (408)
T ss_pred             HHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcc--cceEEEEecCccc
Confidence                3445567777655443                        334467889999999999654  4599999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcc
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMP  380 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~  380 (431)
                      .|||||+||||+|++|+||+|+..+++-++.............+++.+.. ...+|+|||..+|..
T Consensus       306 tldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqe  371 (408)
T KOG0727|consen  306 TLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQE  371 (408)
T ss_pred             ccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHH
Confidence            99999999999999999999999999988887766554444445665554 458999999877763

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

Probab=99.97  E-value=4.4e-31  Score=268.71  Aligned_cols=214  Identities=23%  Similarity=0.318  Sum_probs=171.4

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      .+..+|++|+|.+.+|++|.+.+..++.+++.|.++|+++|+|+|||||||||||++|+++|++++.+++.+..+.+   
T Consensus       139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k  218 (398)
T PTZ00454        139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQK  218 (398)
T ss_pred             CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHH
Confidence            34589999999999999999999999999999999999999999999999999999999999999999999876554   


Q ss_pred             ---CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ---ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                         .+...++.+|..+...                        +......+..||+.+||+....  +++||+|||+++.
T Consensus       219 ~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~--~v~VI~aTN~~d~  296 (398)
T PTZ00454        219 YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTT--NVKVIMATNRADT  296 (398)
T ss_pred             hcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCC--CEEEEEecCCchh
Confidence               2334567777655432                        0112356889999999986543  4999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTCL  391 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~l  391 (431)
                      ||||++||||||.+|+|++|+.++|+.|++.++.........++..++. ..|||||||+.+|..+.    ..+......
T Consensus       297 LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A~r~~~~~i~~  376 (398)
T PTZ00454        297 LDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILP  376 (398)
T ss_pred             CCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCccCH
Confidence            9999999999999999999999999999999886543332334556665 34999999998876521    122234566


Q ss_pred             HHHHHHHHHHH
Q 035603          392 KNLIEALKAAK  402 (431)
Q Consensus       392 ~~l~~~l~~~~  402 (431)
                      +++.+++++..
T Consensus       377 ~df~~A~~~v~  387 (398)
T PTZ00454        377 KDFEKGYKTVV  387 (398)
T ss_pred             HHHHHHHHHHH
Confidence            77777777654

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

Probab=99.97  E-value=9.3e-32  Score=253.58  Aligned_cols=191  Identities=25%  Similarity=0.354  Sum_probs=161.2

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      .+.-+|.+++|.+.+.++|.+.+..++.+|++|...|+.+|+|++|||+||||||.||+|+|+.....|+.+-.+++   
T Consensus       179 aP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQk  258 (440)
T KOG0726|consen  179 APQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQK  258 (440)
T ss_pred             CchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHH
Confidence            34478999999999999999999999999999999999999999999999999999999999999999988877765   


Q ss_pred             ---CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ---ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                         .+..-++++|.-+...                        ...-.+++-.|||.+||+.+.  +.+-|||+||+++.
T Consensus       259 ylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsr--gDvKvimATnrie~  336 (440)
T KOG0726|consen  259 YLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSR--GDVKVIMATNRIET  336 (440)
T ss_pred             HhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCcccc--CCeEEEEecccccc
Confidence               2445567787655433                        123467888999999999764  55999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLM  379 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~  379 (431)
                      |||||+||||+|++|+||.|+...++.|+..+.......-...++.++. +..+|+|||+..|.
T Consensus       337 LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAict  400 (440)
T KOG0726|consen  337 LDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICT  400 (440)
T ss_pred             cCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHH
Confidence            9999999999999999999999999999888766543333344666665 45899999997776

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

Probab=99.97  E-value=5.4e-31  Score=245.20  Aligned_cols=212  Identities=23%  Similarity=0.295  Sum_probs=171.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +.-++++|+|.+.+.+++.+.+..++.+++.|.++|+.+|+|+|+|||||||||.+|+|.|...+..|..+-...+    
T Consensus       166 PtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMf  245 (424)
T KOG0652|consen  166 PTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMF  245 (424)
T ss_pred             CcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhh
Confidence            3367999999999999999999999999999999999999999999999999999999999999988887765543    


Q ss_pred             -C-ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 -E-NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 -~-~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                       + +..-++..|.-+..+                        +....+++-.|||.+||+.+.  +.+-||++||+.+.|
T Consensus       246 IGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~--~~vKviAATNRvDiL  323 (424)
T KOG0652|consen  246 IGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSD--DRVKVIAATNRVDIL  323 (424)
T ss_pred             hcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCc--cceEEEeeccccccc
Confidence             2 334467777666554                        234467899999999999765  559999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||||+|.||+|++|+||.|+.++|..|++.+-..........++++++. .+|.+|+.+.+|..+.    ..+..+..-+
T Consensus       324 DPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMiALRr~atev~he  403 (424)
T KOG0652|consen  324 DPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMIALRRGATEVTHE  403 (424)
T ss_pred             CHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHHHHhcccccccHH
Confidence            9999999999999999999999999999988766554444456777774 4999999987776421    2223344556


Q ss_pred             HHHHHHHHH
Q 035603          393 NLIEALKAA  401 (431)
Q Consensus       393 ~l~~~l~~~  401 (431)
                      ++++.+...
T Consensus       404 DfmegI~eV  412 (424)
T KOG0652|consen  404 DFMEGILEV  412 (424)
T ss_pred             HHHHHHHHH
Confidence            666665543

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

Probab=99.97  E-value=4.3e-30  Score=250.57  Aligned_cols=191  Identities=24%  Similarity=0.343  Sum_probs=158.8

Q ss_pred             cCC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc--
Q 035603          187 EHP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV--  263 (431)
Q Consensus       187 ~~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~--  263 (431)
                      .+| ..|+||+|..+.|+-|.+.+..++.-|++|+.+-.|| +|+|++||||||||+||+|+|.+++..|+.++.+.+  
T Consensus       205 ~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPW-kgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltS  283 (491)
T KOG0738|consen  205 RNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPW-KGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTS  283 (491)
T ss_pred             cCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhccccc-ceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhh
Confidence            344 7899999999999999999999999999999999999 599999999999999999999999999999998887  


Q ss_pred             ---CChHHHHHHHHHhhhc-----------------------ccchhhHHHHHHHHhcCcccCCCC--ceEEEEecCCCC
Q 035603          264 ---ENNNELRSLLVDISSK-----------------------KKKSNVTLSGLLNCIGGLWSTCGG--ERIIVFTTNHVD  315 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~-----------------------~~~~~~~~s~lL~~ldg~~~~~~~--~~ivI~TTN~~~  315 (431)
                         +..+.|.+++.+....                       +..+++..++||..|||+......  -++|+++||.||
T Consensus       284 KwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PW  363 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPW  363 (491)
T ss_pred             hhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEeccCCCc
Confidence               2344555554443322                       556788999999999999653322  267888999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcc
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMP  380 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~  380 (431)
                      .||.||+|  ||...|++|+|+.++|..|++..++.........++.++++. |||++||..+|..
T Consensus       364 diDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCre  427 (491)
T KOG0738|consen  364 DIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCRE  427 (491)
T ss_pred             chHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHH
Confidence            99999999  999999999999999999999998754433333455566543 9999999988863

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

Probab=99.97  E-value=3.7e-30  Score=268.39  Aligned_cols=190  Identities=25%  Similarity=0.368  Sum_probs=164.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      ...+|.|++|.++.|+++.+ +..|+++|..|..+|...|+|+||+||||||||+||+|+|++.+.||+.++.++.    
T Consensus       145 ~~v~F~DVAG~dEakeel~E-iVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf  223 (596)
T COG0465         145 VKVTFADVAGVDEAKEELSE-LVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF  223 (596)
T ss_pred             cCcChhhhcCcHHHHHHHHH-HHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh
Confidence            44889999999999999976 7799999999999999999999999999999999999999999999999999875    


Q ss_pred             --CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        .+.+.+|.+|.++.+.                        +.....++++||.+|||+..+  ++++||++||+|+-|
T Consensus       224 VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~--~gviviaaTNRpdVl  301 (596)
T COG0465         224 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN--EGVIVIAATNRPDVL  301 (596)
T ss_pred             cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC--CceEEEecCCCcccc
Confidence              3678999999998864                        112346999999999999754  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMP  380 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~  380 (431)
                      ||||+||||||++|.++.|+...|++|++.+..........++..+++.+ |+++||+++++..
T Consensus       302 D~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NE  365 (596)
T COG0465         302 DPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNE  365 (596)
T ss_pred             hHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHH
Confidence            99999999999999999999999999999887654433334455566644 9999999988853

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

Probab=99.97  E-value=5.2e-30  Score=239.27  Aligned_cols=190  Identities=24%  Similarity=0.317  Sum_probs=163.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      .+-.++.+|+|-.++.+.|.+-+..++.+|+.|-++|+.+|+|+|||||||||||..|+|+|+..+.-|+.+-.+++   
T Consensus       171 kpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselvqk  250 (435)
T KOG0729|consen  171 KPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQK  250 (435)
T ss_pred             CCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHH
Confidence            34489999999999999999999999999999999999999999999999999999999999999999999877765   


Q ss_pred             ---CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ---ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                         ++..-++++|.-+..+                        ++..++++-.|++.+||+..  .+++-|+|+||+|+.
T Consensus       251 yvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdp--rgnikvlmatnrpdt  328 (435)
T KOG0729|consen  251 YVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDP--RGNIKVLMATNRPDT  328 (435)
T ss_pred             HhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCC--CCCeEEEeecCCCCC
Confidence               2344578888777655                        23446789999999999954  566999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhc---chhHHHHHhHhccCCCCHHHHHHHhcc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES---HELFHEIGSLLGETDITPADVAENLMP  380 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~---~~~~~~i~~l~~~~~~s~adI~~~l~~  380 (431)
                      |||||+||||+|++++|++|+.+.|..|++.+-....   ...++-++.||.  +-|+|+|..+|..
T Consensus       329 ldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcp--nstgaeirsvcte  393 (435)
T KOG0729|consen  329 LDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCP--NSTGAEIRSVCTE  393 (435)
T ss_pred             cCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCC--CCcchHHHHHHHH
Confidence            9999999999999999999999999999988765432   234666788887  6789999877764

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.96  E-value=2.8e-29  Score=256.00  Aligned_cols=217  Identities=22%  Similarity=0.303  Sum_probs=172.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--  264 (431)
                      .+..+|++|+|.++++++|.+.+..++.+++.|..+|+.+++|+|||||||||||++|+++|++++.+++.++++.+.  
T Consensus       125 ~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~  204 (389)
T PRK03992        125 SPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK  204 (389)
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHh
Confidence            344889999999999999999999999999999999999999999999999999999999999999999999887652  


Q ss_pred             ----ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ----NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                          +...++.+|..+...                        ......++..+|+.+|++...  +++.||+|||+++.
T Consensus       205 ~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~--~~v~VI~aTn~~~~  282 (389)
T PRK03992        205 FIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR--GNVKIIAATNRIDI  282 (389)
T ss_pred             hccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC--CCEEEEEecCChhh
Confidence                334566677655432                        011234678899999998543  45999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTCL  391 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~l  391 (431)
                      ||+|++||||||..|+||+|+.++|.+|++.++.........++..++. +.|++++||..+|..+.    .........
T Consensus       283 ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~~~~i~~  362 (389)
T PRK03992        283 LDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDDRTEVTM  362 (389)
T ss_pred             CCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCCcCH
Confidence            9999999999999999999999999999999986443222223555555 34999999998876421    122234667


Q ss_pred             HHHHHHHHHHHHHH
Q 035603          392 KNLIEALKAAKEKA  405 (431)
Q Consensus       392 ~~l~~~l~~~~~~~  405 (431)
                      +++.+|+++.+...
T Consensus       363 ~d~~~A~~~~~~~~  376 (389)
T PRK03992        363 EDFLKAIEKVMGKE  376 (389)
T ss_pred             HHHHHHHHHHhccc
Confidence            88888888775443

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

Probab=99.96  E-value=3.2e-29  Score=258.89  Aligned_cols=196  Identities=20%  Similarity=0.262  Sum_probs=169.8

Q ss_pred             eeeccCC--CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          183 HVYFEHP--ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       183 ~~~~~~p--~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+.+..+  ..|++|+|..++|+.|.+-+.++.+.+..|...+++.+.|+|||||||||||.||.|+|..+++.|+.+..
T Consensus       655 ~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKG  734 (952)
T KOG0735|consen  655 GIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKG  734 (952)
T ss_pred             hccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecC
Confidence            3444444  57999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             cCc------CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCC
Q 035603          261 TSV------ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNH  313 (431)
Q Consensus       261 ~~~------~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~  313 (431)
                      .++      .++..++.+|..+...                     .+...+.+++||.+|||...-.|  +.|+++|.+
T Consensus       735 PElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~G--V~i~aaTsR  812 (952)
T KOG0735|consen  735 PELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDG--VYILAATSR  812 (952)
T ss_pred             HHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccce--EEEEEecCC
Confidence            775      3567899999887654                     34567899999999999976544  999999999


Q ss_pred             CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          314 VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       314 ~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      ||.|||||+||||+|+.|+-|.|+..+|.+|++..-.....+...+++.++.. .|||+||++.+|-.
T Consensus       813 pdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~~  880 (952)
T KOG0735|consen  813 PDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLYN  880 (952)
T ss_pred             ccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHHH
Confidence            99999999999999999999999999999999876554333445567777774 49999999988763

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

Probab=99.96  E-value=3.9e-29  Score=256.22  Aligned_cols=215  Identities=22%  Similarity=0.292  Sum_probs=168.8

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-  264 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-  264 (431)
                      ..++.+|++|+|.++++++|.+.+..++.+++.|..+|+.+++|+|||||||||||++|+++|++++.+++.+..+.+. 
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~  255 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ  255 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence            3455899999999999999999999999999999999999999999999999999999999999999999998877652 


Q ss_pred             -----ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          265 -----NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       265 -----~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                           +...++.+|..+...                        ......++..||+.+||+...  .++.||+|||+++
T Consensus       256 k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~--~~V~VI~ATNr~d  333 (438)
T PTZ00361        256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR--GDVKVIMATNRIE  333 (438)
T ss_pred             hhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc--CCeEEEEecCChH
Confidence                 233466666544322                        011235678899999998543  4599999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHH
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTC  390 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~  390 (431)
                      .||||++||||||.+|+|++|+.++|.+|++.++.........++..++. ..|+|+|||..+|..+.    ..+....+
T Consensus       334 ~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r~~Vt  413 (438)
T PTZ00361        334 SLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRMKVT  413 (438)
T ss_pred             HhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCccC
Confidence            99999999999999999999999999999999986543322234555555 44999999998875421    11123355


Q ss_pred             HHHHHHHHHHHH
Q 035603          391 LKNLIEALKAAK  402 (431)
Q Consensus       391 l~~l~~~l~~~~  402 (431)
                      .+++..|+++..
T Consensus       414 ~~D~~~A~~~v~  425 (438)
T PTZ00361        414 QADFRKAKEKVL  425 (438)
T ss_pred             HHHHHHHHHHHH
Confidence            667767666653

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.96  E-value=6.9e-29  Score=257.82  Aligned_cols=212  Identities=20%  Similarity=0.244  Sum_probs=163.0

Q ss_pred             eccC-CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          185 YFEH-PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       185 ~~~~-p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      .|.+ ..+|++|+|.+.+|+.+.+....|.   ......|++.++|+|||||||||||++|+++|++++.+++.++++.+
T Consensus       219 e~~~~~~~~~dvgGl~~lK~~l~~~~~~~~---~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l  295 (489)
T CHL00195        219 EFYSVNEKISDIGGLDNLKDWLKKRSTSFS---KQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKL  295 (489)
T ss_pred             cccCCCCCHHHhcCHHHHHHHHHHHHHHhh---HHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHh
Confidence            3434 4789999999999999987665553   34567899999999999999999999999999999999999988654


Q ss_pred             ------CChHHHHHHHHHhhhc----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          264 ------ENNNELRSLLVDISSK----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       264 ------~~~~~l~~l~~~~~~~----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                            .+...++++|..+...                      .+.....++.||+.|+..    ..+++||+|||+++
T Consensus       296 ~~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~----~~~V~vIaTTN~~~  371 (489)
T CHL00195        296 FGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEK----KSPVFVVATANNID  371 (489)
T ss_pred             cccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcC----CCceEEEEecCChh
Confidence                  2456688887655432                      112345677888888753    34599999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch--hHHHHHhHhcc-CCCCHHHHHHHhcccC---CCCCHHH
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE--LFHEIGSLLGE-TDITPADVAENLMPKS---DEDDAGT  389 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~--~~~~i~~l~~~-~~~s~adI~~~l~~~~---~~~~~~~  389 (431)
                      .||||++||||||..|+++.|+.++|.+|++.++......  ...++..++.. .|||+|||..++..+.   ..++...
T Consensus       372 ~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~~~l  451 (489)
T CHL00195        372 LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKREF  451 (489)
T ss_pred             hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence            9999999999999999999999999999999999754321  13346677764 4999999998776421   1122335


Q ss_pred             HHHHHHHHHHHHHH
Q 035603          390 CLKNLIEALKAAKE  403 (431)
Q Consensus       390 ~l~~l~~~l~~~~~  403 (431)
                      ..++++.++++...
T Consensus       452 t~~dl~~a~~~~~P  465 (489)
T CHL00195        452 TTDDILLALKQFIP  465 (489)
T ss_pred             CHHHHHHHHHhcCC
Confidence            66778777776654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.96  E-value=8.9e-29  Score=260.07  Aligned_cols=213  Identities=22%  Similarity=0.351  Sum_probs=170.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      .+..+|++|+|.+++|+++.+ +..++.+++.|...|.+.++|+|||||||||||++++++|++++.+++.++.+++   
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~-~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~  127 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELME-IVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  127 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHH-HHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHH
Confidence            345899999999999999986 5557899999999999999999999999999999999999999999999987754   


Q ss_pred             ---CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ---ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                         .+...++.+|..+...                        ......++++||+.||++...  ++++||+|||+++.
T Consensus       128 ~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~--~~v~vI~aTn~~~~  205 (495)
T TIGR01241       128 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN--TGVIVIAATNRPDV  205 (495)
T ss_pred             HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC--CCeEEEEecCChhh
Confidence               2445788888776543                        011246788999999999654  44999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCL  391 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l  391 (431)
                      ||||++||||||.+|+++.|+.++|.+|++.++.........++..++.. .|+|++||..++..+.    .........
T Consensus       206 ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~~~~i~~  285 (495)
T TIGR01241       206 LDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITM  285 (495)
T ss_pred             cCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence            99999999999999999999999999999999865433333345666664 4999999998776421    122234566


Q ss_pred             HHHHHHHHHHH
Q 035603          392 KNLIEALKAAK  402 (431)
Q Consensus       392 ~~l~~~l~~~~  402 (431)
                      +++..++++..
T Consensus       286 ~~l~~a~~~~~  296 (495)
T TIGR01241       286 NDIEEAIDRVI  296 (495)
T ss_pred             HHHHHHHHHHh
Confidence            77777777654

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.96  E-value=1.2e-28  Score=270.34  Aligned_cols=189  Identities=23%  Similarity=0.302  Sum_probs=161.5

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      ..+|++|+|.+++|+.|.+.+..++..++.|.++|+.+++|+|||||||||||++|+++|++++.+++.++.+++     
T Consensus       449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~v  528 (733)
T TIGR01243       449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWV  528 (733)
T ss_pred             ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhccc
Confidence            478999999999999999999999999999999999999999999999999999999999999999999987764     


Q ss_pred             -CChHHHHHHHHHhhhc----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          264 -ENNNELRSLLVDISSK----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                       ++...++.+|..+...                      .......+++||..|||+...  .+++||+|||+|+.||||
T Consensus       529 Gese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~--~~v~vI~aTn~~~~ld~a  606 (733)
T TIGR01243       529 GESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQEL--SNVVVIAATNRPDILDPA  606 (733)
T ss_pred             CcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCC--CCEEEEEeCCChhhCCHh
Confidence             2456788888776543                      112346789999999998653  459999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ++||||||.+|++|+|+.++|.+|++.++.........++..++.. .|||+|||..+|.
T Consensus       607 llRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~~  666 (733)
T TIGR01243       607 LLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCR  666 (733)
T ss_pred             hcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHHH
Confidence            9999999999999999999999999988765443333345666663 4999999997765

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.96  E-value=1.3e-28  Score=255.79  Aligned_cols=186  Identities=23%  Similarity=0.307  Sum_probs=147.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------eEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------VYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------i~~  257 (431)
                      ++.+|++|+|.++++++|.+.+..++.++++|...|+++++|+|||||||||||++|+++|++++.+          ++.
T Consensus       177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~  256 (512)
T TIGR03689       177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN  256 (512)
T ss_pred             CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe
Confidence            4589999999999999999999999999999999999999999999999999999999999998765          333


Q ss_pred             ecccCc------CChHHHHHHHHHhhhc--------------------------ccchhhHHHHHHHHhcCcccCCCCce
Q 035603          258 LELTSV------ENNNELRSLLVDISSK--------------------------KKKSNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       258 l~~~~~------~~~~~l~~l~~~~~~~--------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                      +..+.+      .+...++.+|..+...                          .......+++||+.|||+...  +++
T Consensus       257 v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~--~~V  334 (512)
T TIGR03689       257 IKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESL--DNV  334 (512)
T ss_pred             ccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccC--Cce
Confidence            333332      1234566666554431                          011235678999999999754  459


Q ss_pred             EEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHHHHhc
Q 035603          306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLM  379 (431)
Q Consensus       306 ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~~~l~  379 (431)
                      +||+|||+++.|||||+||||||.+|+|++|+.++|++|++.|+.... ....++   ....|++++++..++.
T Consensus       335 iVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l-~l~~~l---~~~~g~~~a~~~al~~  404 (512)
T TIGR03689       335 IVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSL-PLDADL---AEFDGDREATAAALIQ  404 (512)
T ss_pred             EEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccC-CchHHH---HHhcCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999986421 222222   3345788887776544

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.

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

Probab=99.96  E-value=4.8e-28  Score=254.66  Aligned_cols=214  Identities=25%  Similarity=0.346  Sum_probs=175.1

Q ss_pred             eccCC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          185 YFEHP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       185 ~~~~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      .+..| .+|++++|.++.|+.+.+.+..++..++.|.+.|+..++|+|||||||||||++|+|+|++++.+|+.++.+++
T Consensus       233 ~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l  312 (494)
T COG0464         233 LFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSEL  312 (494)
T ss_pred             ccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHH
Confidence            34444 89999999999999999999999999999999999999999999999999999999999999999999988765


Q ss_pred             ------CChHHHHHHHHHhhhc-----------------c----cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ------ENNNELRSLLVDISSK-----------------K----KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ------~~~~~l~~l~~~~~~~-----------------~----~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                            ++...++++|..+...                 .    ......+++||.++||+...  ++++||+|||+|+.
T Consensus       313 ~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~--~~v~vi~aTN~p~~  390 (494)
T COG0464         313 LSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKA--EGVLVIAATNRPDD  390 (494)
T ss_pred             hccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCcc--CceEEEecCCCccc
Confidence                  3567899999888744                 1    11248999999999999654  44999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch--hHHHHHhHhc-cCCCCHHHHHHHhcccCCC----C-CHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE--LFHEIGSLLG-ETDITPADVAENLMPKSDE----D-DAG  388 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~--~~~~i~~l~~-~~~~s~adI~~~l~~~~~~----~-~~~  388 (431)
                      ||||++||||||..|++|+|+.++|..+++.++......  ...++..+++ +.|+|++||..++..+...    . ...
T Consensus       391 ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~~~~~~  470 (494)
T COG0464         391 LDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARRRE  470 (494)
T ss_pred             cCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhccCC
Confidence            999999999999999999999999999999999743332  2233455555 4589999999887642210    0 223


Q ss_pred             HHHHHHHHHHHH
Q 035603          389 TCLKNLIEALKA  400 (431)
Q Consensus       389 ~~l~~l~~~l~~  400 (431)
                      ..++++..++++
T Consensus       471 ~~~~~~~~a~~~  482 (494)
T COG0464         471 VTLDDFLDALKK  482 (494)
T ss_pred             ccHHHHHHHHHh
Confidence            455666666655

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

Probab=99.95  E-value=6.3e-28  Score=224.72  Aligned_cols=185  Identities=19%  Similarity=0.307  Sum_probs=156.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      ...+|++|+|+++.|+.- ..+..|+.+|+.|..|   -|+.+|||||||||||++|+|+|++.+.+++.+..+.+    
T Consensus       116 ~~it~ddViGqEeAK~kc-rli~~yLenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGeh  191 (368)
T COG1223         116 SDITLDDVIGQEEAKRKC-RLIMEYLENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEH  191 (368)
T ss_pred             ccccHhhhhchHHHHHHH-HHHHHHhhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHH
Confidence            346899999999999886 5688999999988876   37899999999999999999999999999999998876    


Q ss_pred             --CChHHHHHHHHHhhhc----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          264 --ENNNELRSLLVDISSK----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                        .....+++++..+...                      .++....++.||..|||+..+  ++++.|++||+|+.|||
T Consensus       192 VGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~en--eGVvtIaaTN~p~~LD~  269 (368)
T COG1223         192 VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKEN--EGVVTIAATNRPELLDP  269 (368)
T ss_pred             hhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccC--CceEEEeecCChhhcCH
Confidence              2345678888776654                      445667899999999999754  55999999999999999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      |+..  ||...|+|.+|+.++|..|+..|....+......++.++.. .|+|+.||.+-+++
T Consensus       270 aiRs--RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvlK  329 (368)
T COG1223         270 AIRS--RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLK  329 (368)
T ss_pred             HHHh--hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHHH
Confidence            9998  99999999999999999999999876555544446666663 49999999988775

>CHL00176 ftsH cell division protein; Validated

Probab=99.95  E-value=1.8e-27  Score=254.32  Aligned_cols=213  Identities=23%  Similarity=0.330  Sum_probs=171.0

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--  264 (431)
                      ....+|++|+|.+++|+++.+ +..++..++.|..+|...++|+||+||||||||++|+++|++++.+++.++++.+.  
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~e-iv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~  255 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEE-VVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEM  255 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHH-HHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHH
Confidence            345899999999999999865 66788999999999999999999999999999999999999999999999887642  


Q ss_pred             ----ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ----NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                          ....++.+|..+...                        ......+++.||..+||+...  .+++||+|||+++.
T Consensus       256 ~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~--~~ViVIaaTN~~~~  333 (638)
T CHL00176        256 FVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN--KGVIVIAATNRVDI  333 (638)
T ss_pred             hhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC--CCeeEEEecCchHh
Confidence                345677777766543                        012245789999999998654  34999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhccc----CCCCCHHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPK----SDEDDAGTCL  391 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~----~~~~~~~~~l  391 (431)
                      |||||+||||||.+|+++.|+.++|..|++.++..........+..++.. .|++++||..++..+    ........+.
T Consensus       334 LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~~~It~  413 (638)
T CHL00176        334 LDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITM  413 (638)
T ss_pred             hhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCcCH
Confidence            99999999999999999999999999999999876433334456677764 499999999877642    1222333556


Q ss_pred             HHHHHHHHHHH
Q 035603          392 KNLIEALKAAK  402 (431)
Q Consensus       392 ~~l~~~l~~~~  402 (431)
                      +++..++.+..
T Consensus       414 ~dl~~Ai~rv~  424 (638)
T CHL00176        414 KEIDTAIDRVI  424 (638)
T ss_pred             HHHHHHHHHHH
Confidence            77777776653

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

Probab=99.95  E-value=1.2e-27  Score=233.24  Aligned_cols=189  Identities=21%  Similarity=0.262  Sum_probs=160.3

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC---
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN---  265 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~---  265 (431)
                      .+|++|+|.+.+++++.+.+..++..|++|...+ ..+++|+|||||||||||++|+|+|++.|.+|+.++.+.+.+   
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWf  168 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWF  168 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhH
Confidence            6799999999999999999999999999997433 345789999999999999999999999999999999998733   


Q ss_pred             ---hHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          266 ---NNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       266 ---~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                         ..-++.+|.-+..-                     +.......++|+...||+.+..+..++|+++||+|..||.|+
T Consensus       169 gE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~DlDeAi  248 (386)
T KOG0737|consen  169 GEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFDLDEAI  248 (386)
T ss_pred             HHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCccHHHHH
Confidence               23344555444322                     334456788999999999998888899999999999999999


Q ss_pred             hccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcc
Q 035603          322 IRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMP  380 (431)
Q Consensus       322 lRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~  380 (431)
                      +|  ||...++++.|+.++|+.|++-+|..+..+..-++.+++..+ |||+.||.++|..
T Consensus       249 iR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~  306 (386)
T KOG0737|consen  249 IR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRL  306 (386)
T ss_pred             HH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHH
Confidence            99  999999999999999999999999876655444566666644 9999999999884

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

Probab=99.95  E-value=2.6e-28  Score=230.95  Aligned_cols=187  Identities=26%  Similarity=0.328  Sum_probs=161.6

Q ss_pred             eccCC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          185 YFEHP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       185 ~~~~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ..+.| ..|++|+|.+..|+.|.+.+..+++-|++|..-..|| ||+|||||||||||.||+|+|.+.+..|+.++.+++
T Consensus       124 v~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~Pw-rgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDL  202 (439)
T KOG0739|consen  124 VREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPW-RGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL  202 (439)
T ss_pred             hccCCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcc-eeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHH
Confidence            34555 7899999999999999999999999999999877888 699999999999999999999999999999999887


Q ss_pred             ------CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          264 ------ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       264 ------~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                            +++.-++.+|.-+...                     ...+++....||-.|.|+.. ..++++|+++||-|+.
T Consensus       203 vSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~-d~~gvLVLgATNiPw~  281 (439)
T KOG0739|consen  203 VSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGN-DNDGVLVLGATNIPWV  281 (439)
T ss_pred             HHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhcccc-CCCceEEEecCCCchh
Confidence                  2334466777655443                     33457788999999999975 4567999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhccC-CCCHHHHH
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGET-DITPADVA  375 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~~~-~~s~adI~  375 (431)
                      ||.|+.|  ||+..|++|+|...+|..|++.+++...|.+ ..++..|+..+ |||++||.
T Consensus       282 LDsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDis  340 (439)
T KOG0739|consen  282 LDSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDIS  340 (439)
T ss_pred             HHHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceE
Confidence            9999999  9999999999999999999999999888765 45688888744 99999986

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

Probab=99.95  E-value=1.4e-27  Score=227.31  Aligned_cols=213  Identities=21%  Similarity=0.303  Sum_probs=169.9

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-----
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-----  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  264 (431)
                      .+|+.++|+-++..++.+-+..++.++..+.++|+.+|.|+|||||||||||.+|+++|..+|++++.+..+.+.     
T Consensus       129 ~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiG  208 (388)
T KOG0651|consen  129 ISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIG  208 (388)
T ss_pred             cCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcc
Confidence            489999999999999999999999999999999999999999999999999999999999999999999888763     


Q ss_pred             -ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          265 -NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       265 -~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                       ...-+++.|..+...                        +..-..++-.|||.|||+....  .+-+|+|||+|+.|||
T Consensus       209 EsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~--rVk~ImatNrpdtLdp  286 (388)
T KOG0651|consen  209 ESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLH--RVKTIMATNRPDTLDP  286 (388)
T ss_pred             cHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcc--cccEEEecCCccccch
Confidence             223466777665543                        2334678999999999997654  4899999999999999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhc-c--hhHHHHHhHhccCCCCHHHHHHHhcccC---CCCCH-HHHHH
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES-H--ELFHEIGSLLGETDITPADVAENLMPKS---DEDDA-GTCLK  392 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~-~--~~~~~i~~l~~~~~~s~adI~~~l~~~~---~~~~~-~~~l~  392 (431)
                      ||+||||+|+.+++|.|+...|..+++.+-.... +  -..+.+.++.+  ++.++|+.+.+...-   .+++. ..-.+
T Consensus       287 aLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d--~f~gad~rn~~tEag~Fa~~~~~~~vl~E  364 (388)
T KOG0651|consen  287 ALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVD--GFNGADLRNVCTEAGMFAIPEERDEVLHE  364 (388)
T ss_pred             hhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHh--ccChHHHhhhcccccccccchhhHHHhHH
Confidence            9999999999999999999999998887654321 1  23555666665  899999887776522   22222 24446


Q ss_pred             HHHHHHHHHHHHHH
Q 035603          393 NLIEALKAAKEKAK  406 (431)
Q Consensus       393 ~l~~~l~~~~~~~~  406 (431)
                      ++..+..+.....+
T Consensus       365 d~~k~vrk~~~~kk  378 (388)
T KOG0651|consen  365 DFMKLVRKQADAKK  378 (388)
T ss_pred             HHHHHHHHHHHHHH
Confidence            67666666554433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.94  E-value=1.6e-26  Score=234.20  Aligned_cols=192  Identities=23%  Similarity=0.304  Sum_probs=153.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--  264 (431)
                      .+..+|++|+|.+++++.|.+.+..++.+++.|..+|+.+++|+|||||||||||++|+++|++++.+++.+..+.+.  
T Consensus       116 ~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~  195 (364)
T TIGR01242       116 RPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRK  195 (364)
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHH
Confidence            345789999999999999999999999999999999999999999999999999999999999999999988765431  


Q ss_pred             ----ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ----NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                          ....++.+|..+...                        +......+..+|+.+|++...  +++.||+|||+++.
T Consensus       196 ~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~--~~v~vI~ttn~~~~  273 (364)
T TIGR01242       196 YIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPR--GNVKVIAATNRPDI  273 (364)
T ss_pred             hhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCC--CCEEEEEecCChhh
Confidence                123345555443321                        011235678889999987443  45999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      +|++++||||||..|+++.|+.++|..|++.++.........++..++.. .|++++||..++..
T Consensus       274 ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~~  338 (364)
T TIGR01242       274 LDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTE  338 (364)
T ss_pred             CChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999998754332221234455553 39999999977663

Many proteins may score above the trusted cutoff because an internal

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.93  E-value=5.6e-26  Score=255.72  Aligned_cols=190  Identities=14%  Similarity=0.131  Sum_probs=137.6

Q ss_pred             CHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC-----------------------------
Q 035603          215 GKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN-----------------------------  265 (431)
Q Consensus       215 ~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~-----------------------------  265 (431)
                      ++..+.++|..+|||+||+||||||||+||+|+|++++.+++.++++++-.                             
T Consensus      1618 ~kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~ 1697 (2281)
T CHL00206       1618 GKPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDL 1697 (2281)
T ss_pred             CcCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhccccccccccccccccccccccccccccc
Confidence            456778899999999999999999999999999999999999998765421                             


Q ss_pred             --------------------hHHHHHHHHHhhhc---------------ccchhhHHHHHHHHhcCccc-CCCCceEEEE
Q 035603          266 --------------------NNELRSLLVDISSK---------------KKKSNVTLSGLLNCIGGLWS-TCGGERIIVF  309 (431)
Q Consensus       266 --------------------~~~l~~l~~~~~~~---------------~~~~~~~~s~lL~~ldg~~~-~~~~~~ivI~  309 (431)
                                          ...|+.+|..|...               ......++++||+.|||... ....+++|||
T Consensus      1698 ~~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIA 1777 (2281)
T CHL00206       1698 DTELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIA 1777 (2281)
T ss_pred             chhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEE
Confidence                                01256667766554               12223468999999998743 2345699999


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhc---chhHHHHHhHhcc-CCCCHHHHHHHhcccC---
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES---HELFHEIGSLLGE-TDITPADVAENLMPKS---  382 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~---~~~~~~i~~l~~~-~~~s~adI~~~l~~~~---  382 (431)
                      |||+|+.|||||+||||||++|+++.|+..+|+.++...+....   .....++..++.. .|||+|||+.++..+.   
T Consensus      1778 ATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliA 1857 (2281)
T CHL00206       1778 STHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSIS 1857 (2281)
T ss_pred             eCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988765432111   1111235566664 4999999998765421   


Q ss_pred             -CCCCHHHHHHHHHHHHHHHHHH
Q 035603          383 -DEDDAGTCLKNLIEALKAAKEK  404 (431)
Q Consensus       383 -~~~~~~~~l~~l~~~l~~~~~~  404 (431)
                       .......+.+++..|+.+....
T Consensus      1858 irq~ks~Id~~~I~~Al~Rq~~g 1880 (2281)
T CHL00206       1858 ITQKKSIIDTNTIRSALHRQTWD 1880 (2281)
T ss_pred             HHcCCCccCHHHHHHHHHHHHhh
Confidence             2222234455666666655433

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.93  E-value=2.1e-25  Score=240.41  Aligned_cols=210  Identities=20%  Similarity=0.306  Sum_probs=165.3

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      ..+|+++.|.+..++.+.+ +..++..+..|...|...++|+||+||||||||++++++|++++.+++.++.+++     
T Consensus       148 ~~~~~di~g~~~~~~~l~~-i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~  226 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAE-LVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV  226 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHH-HHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhh
Confidence            4679999999999999866 5556778888999999999999999999999999999999999999999988654     


Q ss_pred             -CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          264 -ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                       .+...++.+|..+...                        ......++++||..|||+....  +++||+|||+|+.||
T Consensus       227 g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~--~vivIaaTN~p~~lD  304 (644)
T PRK10733        227 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE--GIIVIAATNRPDVLD  304 (644)
T ss_pred             cccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCC--CeeEEEecCChhhcC
Confidence             2345677777665433                        0112458899999999996544  499999999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHHHHHH
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGTCLKN  393 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~~l~~  393 (431)
                      ||++||||||++|++++|+.++|.+|++.|+.........++..++. ..|||+|||.+++..+.    ..+.......+
T Consensus       305 ~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~~~~i~~~d  384 (644)
T PRK10733        305 PALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVE  384 (644)
T ss_pred             HHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHH
Confidence            99999999999999999999999999999987543322234555666 44999999998886521    12223345566


Q ss_pred             HHHHHHHH
Q 035603          394 LIEALKAA  401 (431)
Q Consensus       394 l~~~l~~~  401 (431)
                      +..++.+.
T Consensus       385 ~~~a~~~v  392 (644)
T PRK10733        385 FEKAKDKI  392 (644)
T ss_pred             HHHHHHHH
Confidence            66665544

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

Probab=99.91  E-value=7.3e-24  Score=208.87  Aligned_cols=176  Identities=17%  Similarity=0.151  Sum_probs=129.2

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      ....+|+++.|.=.+-....+-+...+ .+.+....|+.+|+|++||||||||||++|+++|+++|.+++.++.+++   
T Consensus       109 ~~~~~f~~~~g~~~~~p~f~dk~~~hi-~kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk  187 (413)
T PLN00020        109 QRTRSFDNLVGGYYIAPAFMDKVAVHI-AKNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESE  187 (413)
T ss_pred             hhhcchhhhcCccccCHHHHHHHHHHH-HhhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcC
Confidence            344667777444444333333332222 2344455789999999999999999999999999999999999998877   


Q ss_pred             ---CChHHHHHHHHHhhh------c----------------c----cc-hhhHHHHHHHHhcCc--------c--cCCCC
Q 035603          264 ---ENNNELRSLLVDISS------K----------------K----KK-SNVTLSGLLNCIGGL--------W--STCGG  303 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~------~----------------~----~~-~~~~~s~lL~~ldg~--------~--~~~~~  303 (431)
                         +++..|+++|..+..      +                .    .. .+....+||+.+|+.        |  .....
T Consensus       188 ~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~  267 (413)
T PLN00020        188 NAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIP  267 (413)
T ss_pred             cCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCC
Confidence               345779999987753      1                1    01 123347899998864        3  12345


Q ss_pred             ceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc
Q 035603          304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE  366 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~  366 (431)
                      .++||+|||+|+.|||||+||||||..+  ..|+.++|..|++.++...... ..++.+++..
T Consensus       268 ~V~VIaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~  327 (413)
T PLN00020        268 RVPIIVTGNDFSTLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRDDGVS-REDVVKLVDT  327 (413)
T ss_pred             CceEEEeCCCcccCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHc
Confidence            6899999999999999999999999975  5899999999999998755332 4567777663

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

Probab=99.91  E-value=3e-24  Score=233.23  Aligned_cols=190  Identities=24%  Similarity=0.290  Sum_probs=156.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----CeEEecccC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----DVYDLELTS  262 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----~i~~l~~~~  262 (431)
                      .-.+|++|+|.+.++.++.+-+..++..++.|..+++-+|||+|||||||||||++|+|+|..+.-     .++.-+..+
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD  339 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD  339 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence            346799999999999999999999999999999999999999999999999999999999998742     344433333


Q ss_pred             c------CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          263 V------ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       263 ~------~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                      .      +.+..++-+|.++...                     .......++.||-.|||+.+.  +.++||+|||+++
T Consensus       340 ~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsR--gqVvvigATnRpd  417 (1080)
T KOG0732|consen  340 CLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSR--GQVVVIGATNRPD  417 (1080)
T ss_pred             hhccccCcHHHHHHHHHHHHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCC--CceEEEcccCCcc
Confidence            2      3456788888887765                     233456789999999999765  4599999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHH-HHHhHhcc-CCCCHHHHHHHhc
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFH-EIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~-~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      .+||||+||||||+.++||+|+.++|..|+..+-..-.+.... -+..+++. .||-+||++.+|-
T Consensus       418 a~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCT  483 (1080)
T KOG0732|consen  418 AIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCT  483 (1080)
T ss_pred             ccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHH
Confidence            9999999999999999999999999999998887654443333 34556664 4999999987764

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

Probab=99.91  E-value=8.1e-25  Score=220.30  Aligned_cols=189  Identities=20%  Similarity=0.288  Sum_probs=143.4

Q ss_pred             CCcccc--ccChhhHHHH-HHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-eEEecccCc--
Q 035603          190 ATFDTL--AMASKKKEAI-KKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-VYDLELTSV--  263 (431)
Q Consensus       190 ~~f~~l--~g~~~~k~~i-~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-i~~l~~~~~--  263 (431)
                      -.|+++  +|.+.--..| ...+..-.-.|+.-.++|+++-+|+|||||||||||.+||.|..-|+.. --.+|..++  
T Consensus       216 f~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~  295 (744)
T KOG0741|consen  216 FNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILN  295 (744)
T ss_pred             CChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHH
Confidence            557775  3333222222 2222222336889999999999999999999999999999999999863 234455543  


Q ss_pred             ----CChHHHHHHHHHhhhc-------------------------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          264 ----ENNNELRSLLVDISSK-------------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       264 ----~~~~~l~~l~~~~~~~-------------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                          +++++++++|.++...                               .+.....+++||..|||+..-  .+++||
T Consensus       296 KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqL--NNILVI  373 (744)
T KOG0741|consen  296 KYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQL--NNILVI  373 (744)
T ss_pred             HhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhh--hcEEEE
Confidence                5678899999887643                               344577899999999999765  459999


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcc----hhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESH----ELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~----~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      +.||++|.||.||+|||||..++++++||...|.+|++.+......    ....++++++.. -+||+|||..++..
T Consensus       374 GMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVks  450 (744)
T KOG0741|consen  374 GMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKS  450 (744)
T ss_pred             eccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHH
Confidence            9999999999999999999999999999999999999887653221    122345566553 39999999988753

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.91  E-value=1.1e-23  Score=231.27  Aligned_cols=189  Identities=25%  Similarity=0.317  Sum_probs=156.3

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE----  264 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~----  264 (431)
                      ..+|++|+|.+++++.|.+.+..++.+++.|..+|+.+++|+|||||||||||+++++||++++.+++.++...+.    
T Consensus       174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~  253 (733)
T TIGR01243       174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYY  253 (733)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccc
Confidence            4789999999999999999999999999999999999999999999999999999999999999999999876542    


Q ss_pred             --ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          265 --NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       265 --~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                        ....++.+|..+...                     .......++.|++.||++...  ..++||+|||+++.||+++
T Consensus       254 g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~--~~vivI~atn~~~~ld~al  331 (733)
T TIGR01243       254 GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGR--GRVIVIGATNRPDALDPAL  331 (733)
T ss_pred             cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccC--CCEEEEeecCChhhcCHHH
Confidence              235677788765433                     111245788999999998543  4589999999999999999


Q ss_pred             hccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhc
Q 035603          322 IRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLM  379 (431)
Q Consensus       322 lRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~  379 (431)
                      .||||||..|+++.|+.++|.+|++.+...........+..++. ..||+++|+..++.
T Consensus       332 ~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~~  390 (733)
T TIGR01243       332 RRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAK  390 (733)
T ss_pred             hCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHHH
Confidence            99999999999999999999999998765432222223455555 34999999987654

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.

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

Probab=99.91  E-value=9.8e-24  Score=218.24  Aligned_cols=189  Identities=23%  Similarity=0.282  Sum_probs=167.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      ++.+ ++++|.......+.+.+..++..+..|...|+++|+|+|+|||||||||.+++|+|++.+..++.++..++    
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKF  258 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhc
Confidence            6777 89999999999999999999999999999999999999999999999999999999999999999998865    


Q ss_pred             --CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          264 --ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                        ++.+.+++.|.++...                     .....++.++|+..+||..+  ..++|||+|||+|+.|||+
T Consensus       259 ~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~--~~~vivl~atnrp~sld~a  336 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKP--DAKVIVLAATNRPDSLDPA  336 (693)
T ss_pred             ccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcC--cCcEEEEEecCCccccChh
Confidence              5678899999887654                     11267889999999999964  4569999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMP  380 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~  380 (431)
                      +.| ||||..++++.|+..+|.+|++.+..........++..++. +.||++||+..+|..
T Consensus       337 lRR-gRfd~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL~~l~~e  396 (693)
T KOG0730|consen  337 LRR-GRFDREVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADLAALCRE  396 (693)
T ss_pred             hhc-CCCcceeeecCCCchhHHHHHHHHHHhcCCcchhhHHHHHHHccchhHHHHHHHHHH
Confidence            999 99999999999999999999999987766554566777777 459999999988764

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

Probab=99.90  E-value=8.6e-24  Score=212.83  Aligned_cols=190  Identities=23%  Similarity=0.284  Sum_probs=163.0

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      .+..|++++|++.+|+.+.+.+..++..++.|..+- ++.+|+||.||||||||+|++|||.+++..|+.++.+++.   
T Consensus       148 ~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~  226 (428)
T KOG0740|consen  148 RNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKY  226 (428)
T ss_pred             CcccccCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhc
Confidence            457789999999999999999999999999998764 5568999999999999999999999999999999998872   


Q ss_pred             ---ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          265 ---NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                         ++.-++.+|.-+...                     +..+.+...++|..++|..+...+.++||+|||+|+.+|.|
T Consensus       227 ~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea  306 (428)
T KOG0740|consen  227 VGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEA  306 (428)
T ss_pred             cChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHHHHH
Confidence               223456666444332                     44566889999999999999888899999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhc-cCCCCHHHHHHHhcc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLG-ETDITPADVAENLMP  380 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~-~~~~s~adI~~~l~~  380 (431)
                      ++|  ||...+++|.|+.+.|..+|++++....+.+ ..+++.+++ +.|||++||..+|..
T Consensus       307 ~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~ke  366 (428)
T KOG0740|consen  307 ARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKE  366 (428)
T ss_pred             HHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHH
Confidence            999  9999999999999999999999998765544 356777777 449999999988875

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

Probab=99.79  E-value=2.8e-19  Score=147.26  Aligned_cols=83  Identities=39%  Similarity=0.641  Sum_probs=76.5

Q ss_pred             hchHHHHHHHHHHHHHhcc-ccCCceEEEEEeecCCCCCcchhHHHHHHHhcCCCCCCCCccceE-------------ec
Q 035603           26 HIPRQAWYFLEKHCHKLVS-LLNPYLEIAFYEFSSNNFLRNKAYSEIQSYLSGREETSLHASRFK-------------AD   91 (431)
Q Consensus        26 ~~p~~l~~~l~~~~~~l~~-~~~~~~ti~i~e~~~~~~~~~~~y~~~~~yls~~~~~~~~~~~l~-------------~~   91 (431)
                      |+|++|+.++.+++++++. +++||+||+|+|+.  |+++|++|+++++||++++  ++.+++|+             |+
T Consensus         1 ~~P~~lr~~~~~~~~~~~~~~~s~~~ti~I~E~~--g~~~N~ly~a~~~YL~s~~--s~~a~rL~~~~~~~~~~~~l~l~   76 (98)
T PF14363_consen    1 LLPHELRSYLRSLLRRLFSSRFSPYLTIVIPEFD--GLSRNELYDAAQAYLSSKI--SPSARRLKASKSKNSKNLVLSLD   76 (98)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCCcEEEEEEeCC--CccccHHHHHHHHHHhhcc--CcccceeeecccCCCCceEEecC
Confidence            6899999999999988765 99999999999995  6899999999999999999  88888887             68


Q ss_pred             CCCceeeeecCeEEEEEEeec
Q 035603           92 DYEEVSDEYKGVRVWWVLGKK  112 (431)
Q Consensus        92 ~~~~~~d~f~g~~~~w~~~~~  112 (431)
                      +||+|+|+|+|+++||..++.
T Consensus        77 ~~e~V~D~F~Gv~v~W~~~~~   97 (98)
T PF14363_consen   77 DGEEVVDVFEGVKVWWSSVCT   97 (98)
T ss_pred             CCCEEEEEECCEEEEEEEEcc
Confidence            999999999999999998864

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

Probab=99.78  E-value=2e-18  Score=165.80  Aligned_cols=155  Identities=24%  Similarity=0.282  Sum_probs=119.1

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHH-HhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC---------CeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYA-KIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY---------DVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~-~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~---------~i~~l~~~  261 (431)
                      |++|+.+.++|+.+...+..-+.-.+.-. .-=+.|.|-+|||||||||||||++|+|+.|..         .+++++..
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh  220 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH  220 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh
Confidence            67888899999999888766554211111 112677899999999999999999999998854         35566665


Q ss_pred             Cc------CChHHHHHHHHHhhhc------------------------------ccchhhHHHHHHHHhcCcccCCCCce
Q 035603          262 SV------ENNNELRSLLVDISSK------------------------------KKKSNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       262 ~~------~~~~~l~~l~~~~~~~------------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                      ++      ++..-+.++|.+....                              ..+.-+.++.+|..||.+...+.  +
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~N--v  298 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPN--V  298 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCC--E
Confidence            54      3334455555443321                              23445789999999999976554  9


Q ss_pred             EEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       306 ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++.+|+|-.+.||.|+..  |-|.+.++++|+..++..|++..+.
T Consensus       299 liL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~Ilkscie  341 (423)
T KOG0744|consen  299 LILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCIE  341 (423)
T ss_pred             EEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHHH
Confidence            999999999999999999  9999999999999999999988764

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

Probab=99.76  E-value=1.3e-17  Score=164.35  Aligned_cols=180  Identities=20%  Similarity=0.224  Sum_probs=133.1

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-----
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-----  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  264 (431)
                      .+|++|++.+.++..|.+....--+.+     ....+-|.+|||||||||||++|+-||...|+++..+...++.     
T Consensus       352 ~pl~~ViL~psLe~Rie~lA~aTaNTK-----~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~q  426 (630)
T KOG0742|consen  352 DPLEGVILHPSLEKRIEDLAIATANTK-----KHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQ  426 (630)
T ss_pred             CCcCCeecCHHHHHHHHHHHHHhcccc-----cccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchH
Confidence            459999999999999876554443322     2334557899999999999999999999999999888877763     


Q ss_pred             ChHHHHHHHHHhhhc-----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          265 NNNELRSLLVDISSK-----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       265 ~~~~l~~l~~~~~~~-----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                      ....+.++|..+..+                       ....+..++.||=-.. -   .+..++++.+||+|+.||.|+
T Consensus       427 aVTkiH~lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTG-d---qSrdivLvlAtNrpgdlDsAV  502 (630)
T KOG0742|consen  427 AVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTG-D---QSRDIVLVLATNRPGDLDSAV  502 (630)
T ss_pred             HHHHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhc-c---cccceEEEeccCCccchhHHH
Confidence            335678888877655                       2223344555543322 2   234589999999999999999


Q ss_pred             hccCceeEEEEcCCCCHHHHHHHHHHhhchhc------c---------------------hhHHHHHhHhc-cCCCCHHH
Q 035603          322 IRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES------H---------------------ELFHEIGSLLG-ETDITPAD  373 (431)
Q Consensus       322 lRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~------~---------------------~~~~~i~~l~~-~~~~s~ad  373 (431)
                      -.  |||..|+||+|..++|..|+..|+...-      .                     .....+.+.+. +.|||+.+
T Consensus       503 ~D--Ride~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkTeGfSGRE  580 (630)
T KOG0742|consen  503 ND--RIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKTEGFSGRE  580 (630)
T ss_pred             Hh--hhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhccCCcHHH
Confidence            99  9999999999999999999998876210      0                     01122444454 45999999


Q ss_pred             HHHHhcc
Q 035603          374 VAENLMP  380 (431)
Q Consensus       374 I~~~l~~  380 (431)
                      |+.++..
T Consensus       581 iakLva~  587 (630)
T KOG0742|consen  581 IAKLVAS  587 (630)
T ss_pred             HHHHHHH
Confidence            9988764

>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=99.68  E-value=1.2e-16  Score=137.19  Aligned_cols=104  Identities=33%  Similarity=0.565  Sum_probs=84.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC------ChHHHHHHHHHhhhc----------------------cc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE------NNNELRSLLVDISSK----------------------KK  281 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~~~~----------------------~~  281 (431)
                      +|||||||||||++++++|+.++.+++.+++..+.      ....+..+|..+...                      ..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~~~~~~~   80 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKSQPSSSS   80 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHCSTSSSH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccccccccc
Confidence            68999999999999999999999999999988764      335677777765322                      11


Q ss_pred             chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCC
Q 035603          282 KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPY  335 (431)
Q Consensus       282 ~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~  335 (431)
                      .....+..|++.++..... +.+++||+|||.++.+||+++| |||+..|++|.
T Consensus        81 ~~~~~~~~L~~~l~~~~~~-~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   81 FEQRLLNQLLSLLDNPSSK-NSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             HHHHHHHHHHHHHHTTTTT-SSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             ccccccceeeecccccccc-cccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence            2345688999999988653 3459999999999999999998 99999999984

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 ....

>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=99.67  E-value=3.1e-15  Score=139.25  Aligned_cols=176  Identities=17%  Similarity=0.197  Sum_probs=113.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCCh
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENN  266 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  266 (431)
                      =.|.+|++++|++++++.+.-.+.......        ..-..+|||||||+||||||+.||++++.++..++...+...
T Consensus        18 lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~--------~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~   89 (233)
T PF05496_consen   18 LRPKSLDEFIGQEHLKGNLKILIRAAKKRG--------EALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKA   89 (233)
T ss_dssp             TS-SSCCCS-S-HHHHHHHHHHHHHHHCTT--------S---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SC
T ss_pred             cCCCCHHHccCcHHHHhhhHHHHHHHHhcC--------CCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhH
Confidence            368999999999999988755444333221        122479999999999999999999999999999998888777


Q ss_pred             HHHHHHHHHhhhc--------ccchhhHHHHHHHHhcCccc-----CC-C--------CceEEEEecCCCCCCChhhhcc
Q 035603          267 NELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLWS-----TC-G--------GERIIVFTTNHVDKLDPALIRR  324 (431)
Q Consensus       267 ~~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~~-----~~-~--------~~~ivI~TTN~~~~Ld~AllRp  324 (431)
                      .++..++......        +...+.....|+..|+...-     .. +        ...-+|++|++...|.+.|.. 
T Consensus        90 ~dl~~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrd-  168 (233)
T PF05496_consen   90 GDLAAILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRD-  168 (233)
T ss_dssp             HHHHHHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCT-
T ss_pred             HHHHHHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHh-
Confidence            8888887765544        44556666778888764321     11 1        135689999999999999988 


Q ss_pred             CceeEEEEcCCCCHHHHHHHHHHhhchhcchhHH-HHHhHhccCCCCHH
Q 035603          325 GRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFH-EIGSLLGETDITPA  372 (431)
Q Consensus       325 GRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~-~i~~l~~~~~~s~a  372 (431)
                       ||....++.+.+.++...|+++.......+..+ ....++..+.=||.
T Consensus       169 -RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPR  216 (233)
T PF05496_consen  169 -RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPR  216 (233)
T ss_dssp             -TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHH
T ss_pred             -hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChH
Confidence             999999999999999999998765544333322 23344444444444

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.62  E-value=3.2e-14  Score=137.84  Aligned_cols=154  Identities=16%  Similarity=0.226  Sum_probs=108.6

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC---CceeEEeCCCCCcHHHHHHHHHHHc---C----CCeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW---KRGYLLFGPPGTGKSTMIAAMANCL---N----YDVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPPGtGKTsla~aiA~~l---~----~~i~~l~~~  261 (431)
                      +++++|.+++|+.|.+.+..... .....+.|...   ..++||+||||||||++|+++|+.+   +    .+++.++.+
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            57899999999999886655443 35555667653   3468999999999999999999875   2    256666655


Q ss_pred             CcC------ChHHHHHHHHHhhhc----cc-----------chhhHHHHHHHHhcCcccCCCCceEEEEecCCCC-----
Q 035603          262 SVE------NNNELRSLLVDISSK----KK-----------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD-----  315 (431)
Q Consensus       262 ~~~------~~~~l~~l~~~~~~~----~~-----------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~-----  315 (431)
                      ++.      ....+.++|..+...    ++           .....+..|++.++..    ...+++|++++..+     
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~----~~~~~vila~~~~~~~~~~  159 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDN----RNEFVLILAGYSDEMDYFL  159 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhcc----CCCEEEEecCCcchhHHHH
Confidence            442      234556666554433    11           1234567788888754    23356666654332     


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      .++|+|.+  ||+.+|+||.++.+++..|++.++...
T Consensus       160 ~~~p~L~s--Rf~~~i~f~~~~~~el~~Il~~~~~~~  194 (261)
T TIGR02881       160 SLNPGLRS--RFPISIDFPDYTVEELMEIAERMVKER  194 (261)
T ss_pred             hcChHHHh--ccceEEEECCCCHHHHHHHHHHHHHHc
Confidence            47899999  999999999999999999999988643

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.62  E-value=2.2e-14  Score=140.72  Aligned_cols=153  Identities=20%  Similarity=0.287  Sum_probs=111.0

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCc-e--eEEeCCCCCcHHHHHHHHHHHcC---C----CeEEecccC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKR-G--YLLFGPPGTGKSTMIAAMANCLN---Y----DVYDLELTS  262 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~r-g--~LL~GPPGtGKTsla~aiA~~l~---~----~i~~l~~~~  262 (431)
                      ++++|.+++|++|.+.+.. +..+..+.+.|.+.+. |  +||+||||||||++|+++|..+.   +    +++.++.++
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            4789999999999886644 5556777888876653 4  79999999999999999998752   2    467776554


Q ss_pred             c------CChHHHHHHHHHhhhc----c------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC-----
Q 035603          263 V------ENNNELRSLLVDISSK----K------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD-----  315 (431)
Q Consensus       263 ~------~~~~~l~~l~~~~~~~----~------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~-----  315 (431)
                      +      .+...+..++..+...    +            .........|+..|+..    .++++||++++...     
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~----~~~~~vI~ag~~~~~~~~~  177 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQ----RDDLVVIFAGYKDRMDKFY  177 (287)
T ss_pred             HHHHHhccchHHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcC----CCCEEEEEeCCcHHHHHHH
Confidence            3      1223345555544332    0            12455677888888743    24477777776322     


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      .++|+|.+  ||+.+|+|+.++.+++.+|+..++...
T Consensus       178 ~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~~  212 (287)
T CHL00181        178 ESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEEQ  212 (287)
T ss_pred             hcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHHh
Confidence            35799999  999999999999999999999998654

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.61  E-value=1.5e-14  Score=144.61  Aligned_cols=181  Identities=19%  Similarity=0.211  Sum_probs=124.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      .|.+|++++|.++.++.+...+......       + ..++++|||||||||||++|+++|++++.++...+...+....
T Consensus        20 rP~~~~~~vG~~~~~~~l~~~l~~~~~~-------~-~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~   91 (328)
T PRK00080         20 RPKSLDEFIGQEKVKENLKIFIEAAKKR-------G-EALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPG   91 (328)
T ss_pred             CcCCHHHhcCcHHHHHHHHHHHHHHHhc-------C-CCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChH
Confidence            5789999999999999887666543321       1 2356899999999999999999999999998887776666666


Q ss_pred             HHHHHHHHhhhc--------ccchhhHHHHHHHHhcCccc-----C---------CCCceEEEEecCCCCCCChhhhccC
Q 035603          268 ELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLWS-----T---------CGGERIIVFTTNHVDKLDPALIRRG  325 (431)
Q Consensus       268 ~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~~-----~---------~~~~~ivI~TTN~~~~Ld~AllRpG  325 (431)
                      .+..++......        +.........|.+.++....     .         .-....+|++||++..++++|.+  
T Consensus        92 ~l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~s--  169 (328)
T PRK00080         92 DLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRD--  169 (328)
T ss_pred             HHHHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHH--
Confidence            676666544322        11112222334444442210     0         01236789999999999999988  


Q ss_pred             ceeEEEEcCCCCHHHHHHHHHHhhchhcchhH-HHHHhHhccCCCCHHHHHHHh
Q 035603          326 RMDKHIEMPYCCFEAFKVLAKNYLEIESHELF-HEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       326 Rfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~-~~i~~l~~~~~~s~adI~~~l  378 (431)
                      ||...+++++++.+++.++++........... +.+..++...+-+|..+...+
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l  223 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLL  223 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHH
Confidence            99999999999999999999987764433222 234455554444555554444

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.61  E-value=3.9e-14  Score=138.84  Aligned_cols=152  Identities=17%  Similarity=0.222  Sum_probs=112.7

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC---CceeEEeCCCCCcHHHHHHHHHHHcC-------CCeEEecccCc
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW---KRGYLLFGPPGTGKSTMIAAMANCLN-------YDVYDLELTSV  263 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPPGtGKTsla~aiA~~l~-------~~i~~l~~~~~  263 (431)
                      .++|.+++|++|.+.+.. +..+..+.+.|++.   +.++||+||||||||++|+++|..+.       -+++.++..++
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            689999999999875554 66777888889764   34899999999999999999998763       25777775443


Q ss_pred             ------CChHHHHHHHHHhhhc----c------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCC--C---C
Q 035603          264 ------ENNNELRSLLVDISSK----K------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV--D---K  316 (431)
Q Consensus       264 ------~~~~~l~~l~~~~~~~----~------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~--~---~  316 (431)
                            .+...+..+|..+.+.    +            .........|++.|+..    ..+++||++++..  +   .
T Consensus       102 ~~~~~g~~~~~~~~~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~----~~~~~vI~a~~~~~~~~~~~  177 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQ----RDDLVVILAGYKDRMDSFFE  177 (284)
T ss_pred             hHhhcccchHHHHHHHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcC----CCCEEEEEeCCcHHHHHHHh
Confidence                  1234455666654333    1            12345567888888743    2457777776542  3   3


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      ++|+|.+  ||+.+|+||.++.+++..|+++++...
T Consensus       178 ~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~~  211 (284)
T TIGR02880       178 SNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKEQ  211 (284)
T ss_pred             hCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHHh
Confidence            5899999  999999999999999999999998653

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.58  E-value=4.6e-14  Score=139.48  Aligned_cols=175  Identities=16%  Similarity=0.157  Sum_probs=115.8

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELR  270 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~  270 (431)
                      +|++++|.+++++.|...+......+        ..+.+++||||||||||++++++|++++.++..++.+.......+.
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            68999999999999877665443321        2345799999999999999999999999988777665554444555


Q ss_pred             HHHHHhhhc--------ccchhhHHHHHHHHhcCccc--------------CCCCceEEEEecCCCCCCChhhhccCcee
Q 035603          271 SLLVDISSK--------KKKSNVTLSGLLNCIGGLWS--------------TCGGERIIVFTTNHVDKLDPALIRRGRMD  328 (431)
Q Consensus       271 ~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~~--------------~~~~~~ivI~TTN~~~~Ld~AllRpGRfd  328 (431)
                      ..+......        +.........|++.++....              .......+|++||++..+++++.+  ||.
T Consensus        74 ~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~s--R~~  151 (305)
T TIGR00635        74 AILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRD--RFG  151 (305)
T ss_pred             HHHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHh--hcc
Confidence            544332221        11122233345555442210              011237899999999999999998  999


Q ss_pred             EEEEcCCCCHHHHHHHHHHhhchhcchhH-HHHHhHhccCCCCHHHHH
Q 035603          329 KHIEMPYCCFEAFKVLAKNYLEIESHELF-HEIGSLLGETDITPADVA  375 (431)
Q Consensus       329 ~~I~~~~p~~~~r~~i~~~~l~~~~~~~~-~~i~~l~~~~~~s~adI~  375 (431)
                      ..+.+++++.++..++++........... +.+..++...+=+|..+.
T Consensus       152 ~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~  199 (305)
T TIGR00635       152 IILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIAN  199 (305)
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHH
Confidence            99999999999999999877653322222 223444443333444443

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.

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

Probab=99.57  E-value=2.8e-14  Score=149.80  Aligned_cols=146  Identities=23%  Similarity=0.237  Sum_probs=110.5

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHH--
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRS--  271 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~--  271 (431)
                      +-.|.+++|+.|++.+.--...+       .-...-++|+||||+|||||+++||..+|..|+.+++..+.++++++.  
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~-------~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTK-------KLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhc-------cCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccc
Confidence            45789999999998775444332       122235789999999999999999999999999999999988887753  


Q ss_pred             --HHHHhhhc------------------------ccchhhHHHHHHHHhcCccc-----------CCCCceEEEEecCCC
Q 035603          272 --LLVDISSK------------------------KKKSNVTLSGLLNCIGGLWS-----------TCGGERIIVFTTNHV  314 (431)
Q Consensus       272 --l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~-----------~~~~~~ivI~TTN~~  314 (431)
                        .+...+++                        ......--+.||..||--..           ..-.++++|+|+|..
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              11111111                        22234456778887774211           112368999999999


Q ss_pred             CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          315 DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      +.+|.+|+.  ||. .|+++-.+.++..+|+++||
T Consensus       477 ~tIP~PLlD--RME-iI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         477 DTIPAPLLD--RME-VIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             ccCChHHhc--cee-eeeecCCChHHHHHHHHHhc
Confidence            999999999  995 79999999999999999998

>TIGR00763 lon ATP-dependent protease La

Probab=99.57  E-value=1.3e-13  Score=152.27  Aligned_cols=147  Identities=26%  Similarity=0.253  Sum_probs=106.4

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCCh-------
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENN-------  266 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~-------  266 (431)
                      ++.|.+++|+.|.+.+......       +...+..+||+||||||||++|++||+.++.+++.++++...+.       
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            4789999999988866544322       22334479999999999999999999999999999987654322       


Q ss_pred             --------HHHHHHHHHhhhc-------------ccchhhHHHHHHHHhcCc-----ccC------CCCceEEEEecCCC
Q 035603          267 --------NELRSLLVDISSK-------------KKKSNVTLSGLLNCIGGL-----WST------CGGERIIVFTTNHV  314 (431)
Q Consensus       267 --------~~l~~l~~~~~~~-------------~~~~~~~~s~lL~~ldg~-----~~~------~~~~~ivI~TTN~~  314 (431)
                              ..+.+.|..+...             ........+.||..||..     ...      .-.++++|+|||.+
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                    2334444443222             111223456788888731     100      11358999999999


Q ss_pred             CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          315 DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +.|||+|++  ||+ .|+|+.++.+++..|++.|+.
T Consensus       474 ~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l~  506 (775)
T TIGR00763       474 DTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYLI  506 (775)
T ss_pred             hhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHHH
Confidence            999999999  996 689999999999999999873

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=7.3e-14  Score=145.51  Aligned_cols=144  Identities=24%  Similarity=0.357  Sum_probs=104.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -+|.+|++++|++.+++.|...+.    ..        ..+.++|||||||||||++|+++|+.+++             
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~----~~--------~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~   75 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALK----KN--------SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECR   75 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHH----cC--------CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccH
Confidence            479999999999998776654332    21        23557999999999999999999999876             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++.+.-.+.+.++++.......              +.-.....+.||..++..    ++.+++|
T Consensus        76 ~c~~i~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p----~~~vv~I  151 (472)
T PRK14962         76 ACRSIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEP----PSHVVFV  151 (472)
T ss_pred             HHHHHhcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhC----CCcEEEE
Confidence                       56777765444456676655443321              122334567788888743    3457888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ++||.+..+++++.+  |+ ..++|..++.++...+++...
T Consensus       152 lattn~~kl~~~L~S--R~-~vv~f~~l~~~el~~~L~~i~  189 (472)
T PRK14962        152 LATTNLEKVPPTIIS--RC-QVIEFRNISDELIIKRLQEVA  189 (472)
T ss_pred             EEeCChHhhhHHHhc--Cc-EEEEECCccHHHHHHHHHHHH
Confidence            888888899999998  66 479999999888777776654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=5.8e-14  Score=148.36  Aligned_cols=146  Identities=18%  Similarity=0.232  Sum_probs=111.6

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      .+|.+|++|+|++.+++.|.+.+..           | ..+..|||+||+|||||++|+++|+.+++             
T Consensus        10 YRPqtFddVIGQe~vv~~L~~al~~-----------g-RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~P   77 (700)
T PRK12323         10 WRPRDFTTLVGQEHVVRALTHALEQ-----------Q-RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQP   77 (700)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCC
Confidence            4799999999999999887665431           1 23468999999999999999999999986             


Q ss_pred             ----------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCC
Q 035603          254 ----------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       254 ----------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                                      +++.++..+-.+.+++++++......              +.-+....+.||..|+.    +.+
T Consensus        78 CG~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEE----PP~  153 (700)
T PRK12323         78 CGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEE----PPE  153 (700)
T ss_pred             CcccHHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhcc----CCC
Confidence                            45556655434456677776553321              33455678889998884    345


Q ss_pred             ceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      .+++|++||.+++|.+.+++  |. ..+.|..++.++....++..+..
T Consensus       154 ~v~FILaTtep~kLlpTIrS--RC-q~f~f~~ls~eei~~~L~~Il~~  198 (700)
T PRK12323        154 HVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPGHIVSHLDAILGE  198 (700)
T ss_pred             CceEEEEeCChHhhhhHHHH--HH-HhcccCCCChHHHHHHHHHHHHH
Confidence            68999999999999999998  55 68899999998888877766543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.55  E-value=8.5e-14  Score=148.85  Aligned_cols=146  Identities=19%  Similarity=0.262  Sum_probs=110.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      .+|.+|++|+|++.+++.|.+.+.    .       | ..+..||||||||||||++++++|+.+++             
T Consensus        10 YRPqtFdEVIGQe~Vv~~L~~aL~----~-------g-RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~   77 (830)
T PRK07003         10 WRPKDFASLVGQEHVVRALTHALD----G-------G-RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCR   77 (830)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHh----c-------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccH
Confidence            379999999999999888766542    1       1 23568999999999999999999999875             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.+|..+-.+.+++++++......              +.-+....+.||..|+..    ...++||
T Consensus        78 sCr~I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEP----P~~v~FI  153 (830)
T PRK07003         78 ACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEP----PPHVKFI  153 (830)
T ss_pred             HHHHHhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhc----CCCeEEE
Confidence                       45556655434456677776654321              334455678899988853    3458999


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++||.+++|.+.|++  |+ .++.|..++.++....++..+..
T Consensus       154 LaTtd~~KIp~TIrS--RC-q~f~Fk~Ls~eeIv~~L~~Il~~  193 (830)
T PRK07003        154 LATTDPQKIPVTVLS--RC-LQFNLKQMPAGHIVSHLERILGE  193 (830)
T ss_pred             EEECChhhccchhhh--he-EEEecCCcCHHHHHHHHHHHHHH
Confidence            999999999999998  55 78999999999888888777653

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=8.3e-14  Score=143.65  Aligned_cols=146  Identities=18%  Similarity=0.324  Sum_probs=106.4

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      .-.|.+|++|+|++.+.+.|...+.    .       | ..+..|||+||||||||++|+++|+.+++            
T Consensus        11 KyRP~~f~dvVGQe~iv~~L~~~i~----~-------~-ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C   78 (484)
T PRK14956         11 KYRPQFFRDVIHQDLAIGALQNALK----S-------G-KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNEC   78 (484)
T ss_pred             HhCCCCHHHHhChHHHHHHHHHHHH----c-------C-CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCC
Confidence            3479999999999999887765543    1       1 13457999999999999999999999987            


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++...-.+.+.++++.......              +.-+....+.||..|+.    +...+++
T Consensus        79 ~sC~~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEE----Pp~~viF  154 (484)
T PRK14956         79 TSCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEE----PPAHIVF  154 (484)
T ss_pred             cHHHHHHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhc----CCCceEE
Confidence                        35555554333445566654433211              33455678889988874    3456899


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |++||.++.|++++++  |. .++.|..++.++....++..+.
T Consensus       155 ILaTte~~kI~~TI~S--RC-q~~~f~~ls~~~i~~~L~~i~~  194 (484)
T PRK14956        155 ILATTEFHKIPETILS--RC-QDFIFKKVPLSVLQDYSEKLCK  194 (484)
T ss_pred             EeecCChhhccHHHHh--hh-heeeecCCCHHHHHHHHHHHHH
Confidence            9999999999999998  65 4688888888777776666544

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=8.7e-14  Score=147.30  Aligned_cols=147  Identities=23%  Similarity=0.345  Sum_probs=111.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      .+|.+|++|+|.+.+++.|...+.           .| ..+.+|||+||||||||++|+++|+.+++             
T Consensus         9 yRPktFddVIGQe~vv~~L~~aI~-----------~g-rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~   76 (702)
T PRK14960          9 YRPRNFNELVGQNHVSRALSSALE-----------RG-RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCA   76 (702)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH-----------cC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCH
Confidence            368999999999999888866553           12 23468999999999999999999999876             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++.++-...+.+++++......              +.-+....+.||..|+..    .+.+.+|
T Consensus        77 sC~~I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEP----P~~v~FI  152 (702)
T PRK14960         77 TCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEP----PEHVKFL  152 (702)
T ss_pred             HHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcC----CCCcEEE
Confidence                       56666766544566777776544221              333456778899988853    3457888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      ++||.+..+++.+++  |. ..++|..++.++....++..+...
T Consensus       153 LaTtd~~kIp~TIlS--RC-q~feFkpLs~eEI~k~L~~Il~kE  193 (702)
T PRK14960        153 FATTDPQKLPITVIS--RC-LQFTLRPLAVDEITKHLGAILEKE  193 (702)
T ss_pred             EEECChHhhhHHHHH--hh-heeeccCCCHHHHHHHHHHHHHHc
Confidence            888999999999987  55 688999999988887777766543

>PRK04195 replication factor C large subunit; Provisional

Probab=99.55  E-value=1.5e-13  Score=144.43  Aligned_cols=152  Identities=20%  Similarity=0.314  Sum_probs=114.7

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .|.  .--.|.+|++|+|.+++++.|.+.+..+..        |.+ ++++|||||||||||++|+++|++++++++.++
T Consensus         3 ~W~--eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~--------g~~-~~~lLL~GppG~GKTtla~ala~el~~~~ieln   71 (482)
T PRK04195          3 PWV--EKYRPKTLSDVVGNEKAKEQLREWIESWLK--------GKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELN   71 (482)
T ss_pred             Cch--hhcCCCCHHHhcCCHHHHHHHHHHHHHHhc--------CCC-CCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEc
Confidence            454  556899999999999999999888876663        223 679999999999999999999999999999999


Q ss_pred             ccCcCChHHHHHHHHHhhhc----------------c----cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          260 LTSVENNNELRSLLVDISSK----------------K----KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       260 ~~~~~~~~~l~~l~~~~~~~----------------~----~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                      .++..+...+..+.......                +    .........|++.++..      ...+|+++|.+..+++
T Consensus        72 asd~r~~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~------~~~iIli~n~~~~~~~  145 (482)
T PRK04195         72 ASDQRTADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKA------KQPIILTANDPYDPSL  145 (482)
T ss_pred             ccccccHHHHHHHHHHhhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHcC------CCCEEEeccCccccch
Confidence            98877666666665443321                1    11123456677776621      2457778899998888


Q ss_pred             -hhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          320 -ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       320 -AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                       .|.+   .-..|+|+.|+..+...+++..+..
T Consensus       146 k~Lrs---r~~~I~f~~~~~~~i~~~L~~i~~~  175 (482)
T PRK04195        146 RELRN---ACLMIEFKRLSTRSIVPVLKRICRK  175 (482)
T ss_pred             hhHhc---cceEEEecCCCHHHHHHHHHHHHHH
Confidence             5554   3367999999999988888877643

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

Probab=99.55  E-value=2e-13  Score=128.80  Aligned_cols=164  Identities=21%  Similarity=0.261  Sum_probs=133.4

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDV  255 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i  255 (431)
                      .....+....|..+++|+|.+.+|+.|.+....|+..        . +...+||+|++||||||+++|+.+++   |+.+
T Consensus        13 ~~l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G--------~-pannvLL~G~rGtGKSSlVkall~~y~~~GLRl   83 (249)
T PF05673_consen   13 GYLEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQG--------L-PANNVLLWGARGTGKSSLVKALLNEYADQGLRL   83 (249)
T ss_pred             CcEEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHcC--------C-CCcceEEecCCCCCHHHHHHHHHHHHhhcCceE
Confidence            3456666677799999999999999999999999985        2 35789999999999999999999865   6788


Q ss_pred             EEecccCcCChHHHHHHHHHhhhc---------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh------
Q 035603          256 YDLELTSVENNNELRSLLVDISSK---------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA------  320 (431)
Q Consensus       256 ~~l~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A------  320 (431)
                      +.+.-.++..-..|...+.....+         ..........|-..|||--...+++++|.+|+|+-..++.-      
T Consensus        84 Iev~k~~L~~l~~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~  163 (249)
T PF05673_consen   84 IEVSKEDLGDLPELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDRED  163 (249)
T ss_pred             EEECHHHhccHHHHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccC
Confidence            888888877766777776654444         34556677889999999887888899999999986555433      


Q ss_pred             -----------------hhccCceeEEEEcCCCCHHHHHHHHHHhhchhc
Q 035603          321 -----------------LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES  353 (431)
Q Consensus       321 -----------------llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~  353 (431)
                                       |-.  ||...|.|..|+.+...+|++++.....
T Consensus       164 ~~~~eih~~d~~eEklSLsD--RFGL~l~F~~~~q~~YL~IV~~~~~~~g  211 (249)
T PF05673_consen  164 IQDDEIHPSDTIEEKLSLSD--RFGLWLSFYPPDQEEYLAIVRHYAERYG  211 (249)
T ss_pred             CCccccCcchHHHHHHhHHH--hCCcEEEecCCCHHHHHHHHHHHHHHcC
Confidence                             333  8999999999999999999999986443

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

Probab=99.54  E-value=5.7e-14  Score=146.85  Aligned_cols=148  Identities=21%  Similarity=0.287  Sum_probs=108.8

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHH-
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRS-  271 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~-  271 (431)
                      +|-.|.+++|+.|++.+.--..       .|-..++-++|+||||+||||++++||..||..|+.++...+.+.++++. 
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            4557888999999887643222       23344567889999999999999999999999999999998877666542 


Q ss_pred             ---HHHHhhhc------------------------ccchhhHHHHHHHHhcCcccC-----------CCCceEEEEecCC
Q 035603          272 ---LLVDISSK------------------------KKKSNVTLSGLLNCIGGLWST-----------CGGERIIVFTTNH  313 (431)
Q Consensus       272 ---l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~-----------~~~~~ivI~TTN~  313 (431)
                         +....+++                        .+....--+.||..||--..+           .-..+++|+|+|.
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               11111111                        122334456677666632110           1135899999999


Q ss_pred             CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          314 VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       314 ~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .+.|||+|+.  ||. .|+++-...++...|+++||-
T Consensus       564 idtIP~pLlD--RME-vIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  564 IDTIPPPLLD--RME-VIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             cccCChhhhh--hhh-eeeccCccHHHHHHHHHHhhh
Confidence            9999999999  995 699999999999999999984

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=1.9e-13  Score=138.58  Aligned_cols=145  Identities=22%  Similarity=0.300  Sum_probs=104.2

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--------------  253 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--------------  253 (431)
                      .|.+|++|+|++.+++.+...+.    .       | ..+..|||+||||||||++|+++|+.+++              
T Consensus        11 rP~~~~~iiGq~~~~~~l~~~~~----~-------~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~   78 (363)
T PRK14961         11 RPQYFRDIIGQKHIVTAISNGLS----L-------G-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCII   78 (363)
T ss_pred             CCCchhhccChHHHHHHHHHHHH----c-------C-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHH
Confidence            68999999999999888765442    1       1 23568999999999999999999999864              


Q ss_pred             ----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          254 ----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       254 ----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                +++.++.++-...+.+++++......              +.-+....+.||..++..    ++.+.+|+
T Consensus        79 c~~~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~----~~~~~fIl  154 (363)
T PRK14961         79 CKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEP----PQHIKFIL  154 (363)
T ss_pred             HHHHhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcC----CCCeEEEE
Confidence                      34444444322345566665543211              222344567788888753    34577888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +|+.++.+.+++..  |+ ..+++++++.++...+++..+..
T Consensus       155 ~t~~~~~l~~tI~S--Rc-~~~~~~~l~~~el~~~L~~~~~~  193 (363)
T PRK14961        155 ATTDVEKIPKTILS--RC-LQFKLKIISEEKIFNFLKYILIK  193 (363)
T ss_pred             EcCChHhhhHHHHh--hc-eEEeCCCCCHHHHHHHHHHHHHH
Confidence            88889999999987  55 67899999999988888776544

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=1.3e-13  Score=143.55  Aligned_cols=146  Identities=18%  Similarity=0.272  Sum_probs=110.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC--------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN--------------  252 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~--------------  252 (431)
                      ..|.+|++|+|++.+++.|.+.+.    .       | ..+.+|||+||||+|||++|+++|+.++              
T Consensus         7 yRP~~f~dliGQe~vv~~L~~a~~----~-------~-ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~   74 (491)
T PRK14964          7 YRPSSFKDLVGQDVLVRILRNAFT----L-------N-KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCH   74 (491)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH----c-------C-CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccH
Confidence            368999999999998887654332    1       2 2356899999999999999999999764              


Q ss_pred             ----------CCeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          253 ----------YDVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       253 ----------~~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                .+++.+|.++..+.++++.++......              +.-+...++.||..|+..    .+.+++|
T Consensus        75 ~C~~i~~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEeP----p~~v~fI  150 (491)
T PRK14964         75 NCISIKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEP----APHVKFI  150 (491)
T ss_pred             HHHHHhccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCC----CCCeEEE
Confidence                      356777777655667788877655322              333456788899999854    3458888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++|+.+++|.+.++.  |. ..++|..++.++....+......
T Consensus       151 latte~~Kl~~tI~S--Rc-~~~~f~~l~~~el~~~L~~ia~~  190 (491)
T PRK14964        151 LATTEVKKIPVTIIS--RC-QRFDLQKIPTDKLVEHLVDIAKK  190 (491)
T ss_pred             EEeCChHHHHHHHHH--hh-eeeecccccHHHHHHHHHHHHHH
Confidence            999999999999998  44 56899999988888777776543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.53  E-value=2.7e-13  Score=142.01  Aligned_cols=147  Identities=21%  Similarity=0.330  Sum_probs=109.1

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      ..+|.+|++++|++.+.+.|...+.   .        | ..+.++||+||||||||++|+++|+.+++            
T Consensus        14 kyRP~~f~dliGq~~vv~~L~~ai~---~--------~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~   81 (507)
T PRK06645         14 KYRPSNFAELQGQEVLVKVLSYTIL---N--------D-RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKT   81 (507)
T ss_pred             hhCCCCHHHhcCcHHHHHHHHHHHH---c--------C-CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCC
Confidence            3579999999999998887755332   1        1 23468999999999999999999999875            


Q ss_pred             ----------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCC
Q 035603          254 ----------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       254 ----------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                                      +++.++..+-.+.++++.++..+...              +.-+...++.||..|+.    +..
T Consensus        82 C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEe----pp~  157 (507)
T PRK06645         82 CEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEE----PPP  157 (507)
T ss_pred             CCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhh----cCC
Confidence                            34444444334556788877665432              23345667888888874    344


Q ss_pred             ceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      .+++|++|+.++++++++++  |. ..++|..++.++...+++..+..
T Consensus       158 ~~vfI~aTte~~kI~~tI~S--Rc-~~~ef~~ls~~el~~~L~~i~~~  202 (507)
T PRK06645        158 HIIFIFATTEVQKIPATIIS--RC-QRYDLRRLSFEEIFKLLEYITKQ  202 (507)
T ss_pred             CEEEEEEeCChHHhhHHHHh--cc-eEEEccCCCHHHHHHHHHHHHHH
Confidence            58888888999999999998  55 57889999999888888776653

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.51  E-value=1.9e-13  Score=143.76  Aligned_cols=145  Identities=19%  Similarity=0.297  Sum_probs=108.0

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD------------  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------  254 (431)
                      .+|.+|++|+|.+.+++.|.+.+..           | ..+..|||+||||||||++|+++|+.+++.            
T Consensus        10 yRP~~f~divGq~~v~~~L~~~~~~-----------~-~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~   77 (509)
T PRK14958         10 WRPRCFQEVIGQAPVVRALSNALDQ-----------Q-YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCE   77 (509)
T ss_pred             HCCCCHHHhcCCHHHHHHHHHHHHh-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCH
Confidence            4699999999999999887765531           1 234589999999999999999999999763            


Q ss_pred             ------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          255 ------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       255 ------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                  ++.++..+-...+.+++++....-.              +.-+....+.||..|+..    .+.+.+|
T Consensus        78 ~C~~i~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEep----p~~~~fI  153 (509)
T PRK14958         78 NCREIDEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEP----PSHVKFI  153 (509)
T ss_pred             HHHHHhcCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhcc----CCCeEEE
Confidence                        6667766545566777776543321              333456788899988854    3458888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++|+.+.++.+.++.  |. ..++|..++.++....++..+.
T Consensus       154 lattd~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~l~~il~  192 (509)
T PRK14958        154 LATTDHHKLPVTVLS--RC-LQFHLAQLPPLQIAAHCQHLLK  192 (509)
T ss_pred             EEECChHhchHHHHH--Hh-hhhhcCCCCHHHHHHHHHHHHH
Confidence            888999999999988  44 6678888888776666655554

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.50  E-value=5.3e-13  Score=142.11  Aligned_cols=145  Identities=21%  Similarity=0.356  Sum_probs=109.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--------------  253 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--------------  253 (431)
                      .|.+|++|+|.+.+++.|.+.+..           | ..+..||||||||||||++|+++|+.+++              
T Consensus        11 rP~~f~~viGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~   78 (559)
T PRK05563         11 RPQTFEDVVGQEHITKTLKNAIKQ-----------G-KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEI   78 (559)
T ss_pred             CCCcHHhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHH
Confidence            699999999999998888765542           1 23568999999999999999999998763              


Q ss_pred             ----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          254 ----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       254 ----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                +++.++.++-.+.+.++.+.......              +.-+....+.||..++..    ...+++|+
T Consensus        79 C~~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEep----p~~~ifIl  154 (559)
T PRK05563         79 CKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEP----PAHVIFIL  154 (559)
T ss_pred             HHHHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCC----CCCeEEEE
Confidence                      45666665544556677776554322              333456788899988854    34588888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +|+.++.|++++++  |. ..++|+.|+.++....++..+..
T Consensus       155 att~~~ki~~tI~S--Rc-~~~~f~~~~~~ei~~~L~~i~~~  193 (559)
T PRK05563        155 ATTEPHKIPATILS--RC-QRFDFKRISVEDIVERLKYILDK  193 (559)
T ss_pred             EeCChhhCcHHHHh--Hh-eEEecCCCCHHHHHHHHHHHHHH
Confidence            88899999999998  55 46889999998888877776643

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.50  E-value=7.6e-13  Score=131.43  Aligned_cols=149  Identities=19%  Similarity=0.187  Sum_probs=105.7

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -.|.  ..-.|.+|++++|.+++++.+...+.           .| ..+..+||+||||+|||++++++|++++.+++.+
T Consensus         9 ~~w~--~kyrP~~~~~~~~~~~~~~~l~~~~~-----------~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i   74 (316)
T PHA02544          9 FMWE--QKYRPSTIDECILPAADKETFKSIVK-----------KG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFV   74 (316)
T ss_pred             Ccce--eccCCCcHHHhcCcHHHHHHHHHHHh-----------cC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEe
Confidence            4575  55689999999999999888776553           12 2355778899999999999999999999999999


Q ss_pred             cccCcCChHHHHHHHHHhh-------h-c----cc---c-hhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhh
Q 035603          259 ELTSVENNNELRSLLVDIS-------S-K----KK---K-SNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALI  322 (431)
Q Consensus       259 ~~~~~~~~~~l~~l~~~~~-------~-~----~~---~-~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~All  322 (431)
                      +++. ...+.++..+....       . +    ++   . .......|.+.++..    ...+.+|+|||.+..+++++.
T Consensus        75 ~~~~-~~~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~----~~~~~~Ilt~n~~~~l~~~l~  149 (316)
T PHA02544         75 NGSD-CRIDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAY----SKNCSFIITANNKNGIIEPLR  149 (316)
T ss_pred             ccCc-ccHHHHHHHHHHHHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhc----CCCceEEEEcCChhhchHHHH
Confidence            9887 32333333221111       1 1    11   1 122334455556643    234788899999999999999


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      +  |+. .+.++.|+.+++..+++.++
T Consensus       150 s--R~~-~i~~~~p~~~~~~~il~~~~  173 (316)
T PHA02544        150 S--RCR-VIDFGVPTKEEQIEMMKQMI  173 (316)
T ss_pred             h--hce-EEEeCCCCHHHHHHHHHHHH
Confidence            9  774 78999999999887776644

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

Probab=99.49  E-value=3.9e-13  Score=133.41  Aligned_cols=142  Identities=25%  Similarity=0.356  Sum_probs=101.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      .|.++++++|++.+...- .-+...+.         ...-.+.+|||||||||||+|+.||+..+++|..++...- +..
T Consensus        19 RP~~lde~vGQ~HLlg~~-~~lrr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~-gvk   87 (436)
T COG2256          19 RPKSLDEVVGQEHLLGEG-KPLRRAVE---------AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTS-GVK   87 (436)
T ss_pred             CCCCHHHhcChHhhhCCC-chHHHHHh---------cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccc-cHH
Confidence            589999999998775331 11222222         1223479999999999999999999999999999987764 466


Q ss_pred             HHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEec--CCCCCCChhhhccCceeEEE
Q 035603          268 ELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT--NHVDKLDPALIRRGRMDKHI  331 (431)
Q Consensus       268 ~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT--N~~~~Ld~AllRpGRfd~~I  331 (431)
                      ++++++..+...              +...+.....||-.++      .+.+++|++|  |..-.|.+||+.+.   +..
T Consensus        88 dlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE------~G~iilIGATTENPsF~ln~ALlSR~---~vf  158 (436)
T COG2256          88 DLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVE------NGTIILIGATTENPSFELNPALLSRA---RVF  158 (436)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhc------CCeEEEEeccCCCCCeeecHHHhhhh---hee
Confidence            799998887544              2333444455666654      1337777654  45569999999954   457


Q ss_pred             EcCCCCHHHHHHHHHHhh
Q 035603          332 EMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       332 ~~~~p~~~~r~~i~~~~l  349 (431)
                      ++...+.++.+.+++.-+
T Consensus       159 ~lk~L~~~di~~~l~ra~  176 (436)
T COG2256         159 ELKPLSSEDIKKLLKRAL  176 (436)
T ss_pred             eeecCCHHHHHHHHHHHH
Confidence            788888888888887743

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.48  E-value=9.9e-13  Score=140.71  Aligned_cols=144  Identities=21%  Similarity=0.302  Sum_probs=109.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--------------  253 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--------------  253 (431)
                      +|.+|++|+|.+.+++.|.+.+..           | ..+..|||+||||||||++|+++|+.+++              
T Consensus        11 RP~~f~divGQe~vv~~L~~~l~~-----------~-rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~   78 (647)
T PRK07994         11 RPQTFAEVVGQEHVLTALANALDL-----------G-RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDN   78 (647)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHH
Confidence            689999999999998877654431           1 23567999999999999999999999877              


Q ss_pred             ----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          254 ----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       254 ----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                +++.++..+-...+.++++.......              +.-+....+.||..|+.    +.+.+++|+
T Consensus        79 C~~i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEE----Pp~~v~FIL  154 (647)
T PRK07994         79 CREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEE----PPEHVKFLL  154 (647)
T ss_pred             HHHHHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHc----CCCCeEEEE
Confidence                      34555554323445677766543322              34456678899999884    345688888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|+.+..|.+.++.  |. ..++|..++.++....+++.+.
T Consensus       155 ~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~~ei~~~L~~il~  192 (647)
T PRK07994        155 ATTDPQKLPVTILS--RC-LQFHLKALDVEQIRQQLEHILQ  192 (647)
T ss_pred             ecCCccccchHHHh--hh-eEeeCCCCCHHHHHHHHHHHHH
Confidence            89999999999998  54 7899999999988888877663

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.48  E-value=1.1e-12  Score=132.28  Aligned_cols=147  Identities=20%  Similarity=0.360  Sum_probs=107.2

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      -..|.+|++++|.+++++.|.+.+..           | ..+..+|||||||+|||++|+++|..+.+            
T Consensus         7 ~~rp~~~~~iig~~~~~~~l~~~~~~-----------~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c   74 (355)
T TIGR02397         7 KYRPQTFEDVIGQEHIVQTLKNAIKN-----------G-RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNEC   74 (355)
T ss_pred             HhCCCcHhhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCC
Confidence            34689999999999999888765531           2 23568999999999999999999998753            


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++.......+.+++++......              +.-.....+.||..++..    .+.+++
T Consensus        75 ~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~----~~~~~l  150 (355)
T TIGR02397        75 ESCKEINSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEP----PEHVVF  150 (355)
T ss_pred             HHHHHHhcCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCC----ccceeE
Confidence                        34444444333344566666554332              122345677888888753    345788


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |++||.++.|.+++.+  |+ ..+++++|+.++...+++.++..
T Consensus       151 Il~~~~~~~l~~~l~s--r~-~~~~~~~~~~~~l~~~l~~~~~~  191 (355)
T TIGR02397       151 ILATTEPHKIPATILS--RC-QRFDFKRIPLEDIVERLKKILDK  191 (355)
T ss_pred             EEEeCCHHHHHHHHHh--he-eEEEcCCCCHHHHHHHHHHHHHH
Confidence            8889999999999988  66 57899999999998888877654

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.48  E-value=1e-12  Score=139.00  Aligned_cols=146  Identities=18%  Similarity=0.327  Sum_probs=106.0

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      --+|.+|++|+|.+.+++.+.+.+.    .       | ..+.+|||+||||+|||++|+++|+.+.+            
T Consensus         9 KyRP~~F~dIIGQe~iv~~L~~aI~----~-------~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C   76 (605)
T PRK05896          9 KYRPHNFKQIIGQELIKKILVNAIL----N-------N-KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSC   76 (605)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHH----c-------C-CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCccc
Confidence            3479999999999999887765432    1       1 23478999999999999999999998864            


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++.++..+.+.++.+.......              +.-+....+.||..|+..    ++..++
T Consensus        77 ~sCr~i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEP----p~~tvf  152 (605)
T PRK05896         77 SVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEP----PKHVVF  152 (605)
T ss_pred             HHHHHHHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhC----CCcEEE
Confidence                        44555554433445677666443322              222344667888888853    445888


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |++|+.+..|.+++++  |. ..++|+.++.++....++..+.
T Consensus       153 IL~Tt~~~KLl~TI~S--Rc-q~ieF~~Ls~~eL~~~L~~il~  192 (605)
T PRK05896        153 IFATTEFQKIPLTIIS--RC-QRYNFKKLNNSELQELLKSIAK  192 (605)
T ss_pred             EEECCChHhhhHHHHh--hh-hhcccCCCCHHHHHHHHHHHHH
Confidence            8888999999999998  55 4789999999888777776543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.48  E-value=9.1e-13  Score=140.65  Aligned_cols=146  Identities=20%  Similarity=0.261  Sum_probs=108.0

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      ..|.+|++|+|++.+++.|.+.+.    .       | ..+..|||+||+|||||++|+++|+.+++             
T Consensus        10 yRP~~f~dviGQe~vv~~L~~~l~----~-------~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~p   77 (618)
T PRK14951         10 YRPRSFSEMVGQEHVVQALTNALT----Q-------Q-RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATP   77 (618)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHH----c-------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCC
Confidence            468999999999998887765432    1       1 23458999999999999999999999876             


Q ss_pred             ----------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCC
Q 035603          254 ----------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       254 ----------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                                      +++.++..+-.+.+.+++++......              +.-+....+.||..|+..    .+
T Consensus        78 Cg~C~~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEP----P~  153 (618)
T PRK14951         78 CGVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEP----PE  153 (618)
T ss_pred             CCccHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccC----CC
Confidence                            34455554433456777777653322              344556788889888853    44


Q ss_pred             ceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      .+++|++|+.+.++.+.++.  |. ..++|..++.++....++..+..
T Consensus       154 ~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~Ls~eei~~~L~~i~~~  198 (618)
T PRK14951        154 YLKFVLATTDPQKVPVTVLS--RC-LQFNLRPMAPETVLEHLTQVLAA  198 (618)
T ss_pred             CeEEEEEECCchhhhHHHHH--hc-eeeecCCCCHHHHHHHHHHHHHH
Confidence            57888888889999999988  44 78999999988888777766543

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.47  E-value=1.1e-12  Score=141.07  Aligned_cols=147  Identities=21%  Similarity=0.341  Sum_probs=107.0

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------  254 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------  254 (431)
                      .-.+|.+|++|+|++.+++.|...+..           | ..+.+||||||||||||++|+++|+.+.+.          
T Consensus        10 ~KyRP~~f~dIiGQe~~v~~L~~aI~~-----------~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~   77 (725)
T PRK07133         10 RKYRPKTFDDIVGQDHIVQTLKNIIKS-----------N-KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQ   77 (725)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchh
Confidence            345799999999999998887766531           1 245689999999999999999999988652          


Q ss_pred             -----------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          255 -----------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       255 -----------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                 ++.++..+-.+.+.++.+.......              +.-+....+.||..|+..    ++.+++|+
T Consensus        78 ~C~~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEP----P~~tifIL  153 (725)
T PRK07133         78 ECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEP----PKHVIFIL  153 (725)
T ss_pred             HHHHhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcC----CCceEEEE
Confidence                       2333332222345577766554432              223445688899988853    44588888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|+.++.|++++++  |+ ..++|..++.++....+...+.
T Consensus       154 aTte~~KLl~TI~S--Rc-q~ieF~~L~~eeI~~~L~~il~  191 (725)
T PRK07133        154 ATTEVHKIPLTILS--RV-QRFNFRRISEDEIVSRLEFILE  191 (725)
T ss_pred             EcCChhhhhHHHHh--hc-eeEEccCCCHHHHHHHHHHHHH
Confidence            88999999999998  55 4899999998888777766543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.47  E-value=1.3e-12  Score=137.13  Aligned_cols=145  Identities=24%  Similarity=0.378  Sum_probs=106.4

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -.|.+|++|+|++.+++.|...+..           + ..+..+|||||||||||++|+++|+.+.+             
T Consensus         8 yRP~~~~dvvGq~~v~~~L~~~i~~-----------~-~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~s   75 (504)
T PRK14963          8 ARPITFDEVVGQEHVKEVLLAALRQ-----------G-RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECES   75 (504)
T ss_pred             hCCCCHHHhcChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChh
Confidence            3799999999999998887665542           1 23456899999999999999999998864             


Q ss_pred             ----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          254 ----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       254 ----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                +++.++..+..+.+.++.+.......              +..+...++.||..++..    ...+++|+
T Consensus        76 c~~i~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep----~~~t~~Il  151 (504)
T PRK14963         76 CLAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEP----PEHVIFIL  151 (504)
T ss_pred             hHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhC----CCCEEEEE
Confidence                      25556655433445566654333221              233455678888888753    34578888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +||.+..+++++.+  |. .+++|+.++.++....++..+.
T Consensus       152 ~t~~~~kl~~~I~S--Rc-~~~~f~~ls~~el~~~L~~i~~  189 (504)
T PRK14963        152 ATTEPEKMPPTILS--RT-QHFRFRRLTEEEIAGKLRRLLE  189 (504)
T ss_pred             EcCChhhCChHHhc--ce-EEEEecCCCHHHHHHHHHHHHH
Confidence            89999999999998  55 4799999999988888777654

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.47  E-value=1.3e-12  Score=142.23  Aligned_cols=146  Identities=19%  Similarity=0.291  Sum_probs=106.2

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD------------  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------  254 (431)
                      -+|.+|++|+|.+.+++.|.+.+.    .       | ..+..|||+||||||||++|+++|+.+++.            
T Consensus        10 yRP~tFddIIGQe~Iv~~LknaI~----~-------~-rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~   77 (944)
T PRK14949         10 WRPATFEQMVGQSHVLHALTNALT----Q-------Q-RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCS   77 (944)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH----h-------C-CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCch
Confidence            368999999999999888755432    1       1 235679999999999999999999999874            


Q ss_pred             ------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          255 ------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       255 ------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                  ++.++..+....+.++.+.......              +.-+....+.||..|+..    .+.+++|
T Consensus        78 sC~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEP----P~~vrFI  153 (944)
T PRK14949         78 SCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEP----PEHVKFL  153 (944)
T ss_pred             HHHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcc----CCCeEEE
Confidence                        1233333222345566665443221              334566788999999853    4457788


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++||.+.+|.+.++.  |. .+++|..++.++....+++.+..
T Consensus       154 LaTTe~~kLl~TIlS--RC-q~f~fkpLs~eEI~~~L~~il~~  193 (944)
T PRK14949        154 LATTDPQKLPVTVLS--RC-LQFNLKSLTQDEIGTQLNHILTQ  193 (944)
T ss_pred             EECCCchhchHHHHH--hh-eEEeCCCCCHHHHHHHHHHHHHH
Confidence            888889999999998  55 67999999999888888776644

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.47  E-value=6e-13  Score=142.09  Aligned_cols=172  Identities=17%  Similarity=0.204  Sum_probs=117.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD------------  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------  254 (431)
                      .+|.+|++|+|.+.+++.|...+..            ...+.+|||+||||||||++|+++|+.+++.            
T Consensus        10 YRP~tFddIIGQe~vv~~L~~ai~~------------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~   77 (709)
T PRK08691         10 WRPKTFADLVGQEHVVKALQNALDE------------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQ   77 (709)
T ss_pred             hCCCCHHHHcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccH
Confidence            4699999999999999887765541            1235689999999999999999999988653            


Q ss_pred             ------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          255 ------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       255 ------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                  ++.++..+-...+.+++++......              +..+....+.||..|+..    .+.+.+|
T Consensus        78 sCr~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEP----p~~v~fI  153 (709)
T PRK08691         78 SCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEP----PEHVKFI  153 (709)
T ss_pred             HHHHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhC----CCCcEEE
Confidence                        3444444333456677776543211              333455678899998853    3457888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhccCCCCHHHHHHH
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGETDITPADVAEN  377 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~~~~~s~adI~~~  377 (431)
                      ++||.+.++.+.++.  |+ ..+.|+.++.++....++..+....... ...+..+++..+-+..++..+
T Consensus       154 LaTtd~~kL~~TIrS--RC-~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        154 LATTDPHKVPVTVLS--RC-LQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             EEeCCccccchHHHH--HH-hhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHH
Confidence            999999999999987  65 6788889999988888877766443221 122333333334444444433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=1.8e-12  Score=137.75  Aligned_cols=146  Identities=23%  Similarity=0.318  Sum_probs=107.6

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      ..|.+|++|+|++.+++.|...+.    .       | ..+..|||+||||||||++|+++|+.+++             
T Consensus         7 yRP~~f~eivGq~~i~~~L~~~i~----~-------~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~   74 (584)
T PRK14952          7 YRPATFAEVVGQEHVTEPLSSALD----A-------G-RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCE   74 (584)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHH----c-------C-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccH
Confidence            379999999999999888766543    1       1 23457999999999999999999998774             


Q ss_pred             -------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceE
Q 035603          254 -------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       254 -------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                                   +++.++.++..+.+.++++.......              +.-+....+.||..|+..    .+.++
T Consensus        75 ~C~~i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEp----p~~~~  150 (584)
T PRK14952         75 SCVALAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEP----PEHLI  150 (584)
T ss_pred             HHHHhhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcC----CCCeE
Confidence                         34455554444456666654433221              344566788899999853    44588


Q ss_pred             EEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       307 vI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +|++|+.+++|.++++.  |. .+++|..++.++....+...+..
T Consensus       151 fIL~tte~~kll~TI~S--Rc-~~~~F~~l~~~~i~~~L~~i~~~  192 (584)
T PRK14952        151 FIFATTEPEKVLPTIRS--RT-HHYPFRLLPPRTMRALIARICEQ  192 (584)
T ss_pred             EEEEeCChHhhHHHHHH--hc-eEEEeeCCCHHHHHHHHHHHHHH
Confidence            99999999999999998  43 68999999988887777766543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.46  E-value=3.5e-12  Score=130.15  Aligned_cols=147  Identities=17%  Similarity=0.261  Sum_probs=105.8

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------------
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------------  254 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------------  254 (431)
                      .|++|+|++.+++.|.+.+.....   .+...+...+.+|||+||||+|||++|+++|..+.+.                
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            589999999999998887765443   2333455567899999999999999999999987653                


Q ss_pred             -------eEEecccCc-CChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecC
Q 035603          255 -------VYDLELTSV-ENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTN  312 (431)
Q Consensus       255 -------i~~l~~~~~-~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN  312 (431)
                             ++.+..... -..+++++++......              +.-.....+.||..|+..    ..+.++|++|+
T Consensus        80 ~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep----~~~~~fIL~a~  155 (394)
T PRK07940         80 LAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEP----PPRTVWLLCAP  155 (394)
T ss_pred             hcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcC----CCCCeEEEEEC
Confidence                   222322211 2345677777655432              223344567899988743    34477777777


Q ss_pred             CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          313 HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       313 ~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                      +++.|+|++++  |. ..|.|+.|+.++....+..
T Consensus       156 ~~~~llpTIrS--Rc-~~i~f~~~~~~~i~~~L~~  187 (394)
T PRK07940        156 SPEDVLPTIRS--RC-RHVALRTPSVEAVAEVLVR  187 (394)
T ss_pred             ChHHChHHHHh--hC-eEEECCCCCHHHHHHHHHH
Confidence            79999999998  55 6899999999988777753

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.45  E-value=9.1e-13  Score=139.39  Aligned_cols=144  Identities=19%  Similarity=0.288  Sum_probs=106.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--------------  253 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--------------  253 (431)
                      .|.+|++|+|.+.+++.|...+..            -..+..|||+||||||||++|+++|+.+++              
T Consensus        11 rP~~f~divGq~~v~~~L~~~i~~------------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~   78 (527)
T PRK14969         11 RPKSFSELVGQEHVVRALTNALEQ------------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSA   78 (527)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHc------------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHH
Confidence            689999999999999887665431            123468999999999999999999999876              


Q ss_pred             ----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          254 ----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       254 ----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                +++.++.+.-...+.+++++......              +.-+....+.||..|+..    .+.+++|+
T Consensus        79 C~~i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEep----p~~~~fIL  154 (527)
T PRK14969         79 CLEIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEP----PEHVKFIL  154 (527)
T ss_pred             HHHHhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCC----CCCEEEEE
Confidence                      34445544333456677776554322              333455678899999853    34578888


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|+.++.+.+.++.  |. ..++|..++.++....+...+.
T Consensus       155 ~t~d~~kil~tI~S--Rc-~~~~f~~l~~~~i~~~L~~il~  192 (527)
T PRK14969        155 ATTDPQKIPVTVLS--RC-LQFNLKQMPPPLIVSHLQHILE  192 (527)
T ss_pred             EeCChhhCchhHHH--HH-HHHhcCCCCHHHHHHHHHHHHH
Confidence            88889999988887  44 6799999999888877776664

>PLN03025 replication factor C subunit; Provisional

Probab=99.45  E-value=2e-12  Score=128.90  Aligned_cols=146  Identities=17%  Similarity=0.182  Sum_probs=102.2

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-----CCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-----YDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-----~~i~~l~  259 (431)
                      ..-.|.+|++++|++++.+.|...+    ..       |. . ..+|||||||||||++|+++|+++.     ..++.++
T Consensus         5 ~kyrP~~l~~~~g~~~~~~~L~~~~----~~-------~~-~-~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln   71 (319)
T PLN03025          5 EKYRPTKLDDIVGNEDAVSRLQVIA----RD-------GN-M-PNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN   71 (319)
T ss_pred             hhcCCCCHHHhcCcHHHHHHHHHHH----hc-------CC-C-ceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec
Confidence            4568999999999999887765432    21       11 1 2599999999999999999999973     2466677


Q ss_pred             ccCcCChHHHHHHHHHhh--------h--c-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhh
Q 035603          260 LTSVENNNELRSLLVDIS--------S--K-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALI  322 (431)
Q Consensus       260 ~~~~~~~~~l~~l~~~~~--------~--~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~All  322 (431)
                      .++..+.+.++..+....        .  +       +.-.....+.|+..++..    +....+|++||.+..+.++|.
T Consensus        72 ~sd~~~~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~----~~~t~~il~~n~~~~i~~~L~  147 (319)
T PLN03025         72 ASDDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIY----SNTTRFALACNTSSKIIEPIQ  147 (319)
T ss_pred             ccccccHHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcc----cCCceEEEEeCCccccchhHH
Confidence            766555555555443211        1  1       223344566677777643    233567889999999999999


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +  |. ..++|+.|+.++....++....
T Consensus       148 S--Rc-~~i~f~~l~~~~l~~~L~~i~~  172 (319)
T PLN03025        148 S--RC-AIVRFSRLSDQEILGRLMKVVE  172 (319)
T ss_pred             H--hh-hcccCCCCCHHHHHHHHHHHHH
Confidence            8  54 5799999999888877776554

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.44  E-value=2.9e-12  Score=135.14  Aligned_cols=145  Identities=20%  Similarity=0.282  Sum_probs=104.7

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -.|.+|++|+|.+.+++.|...+.    .       | ..+..|||+||||||||++|+++|+.+++             
T Consensus        10 yRP~~f~diiGq~~~v~~L~~~i~----~-------~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~   77 (546)
T PRK14957         10 YRPQSFAEVAGQQHALNSLVHALE----T-------Q-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCE   77 (546)
T ss_pred             HCcCcHHHhcCcHHHHHHHHHHHH----c-------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccH
Confidence            368999999999999888765442    1       1 23457999999999999999999998875             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++.....+.++++.++......              +..+....+.||..|+..    ++.+++|
T Consensus        78 sC~~i~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEep----p~~v~fI  153 (546)
T PRK14957         78 NCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEP----PEYVKFI  153 (546)
T ss_pred             HHHHHhcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcC----CCCceEE
Confidence                       45555553333345566665443322              333456778899998853    3457788


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++|+.+..+.++++.  |. ..++|..++.++....++..+.
T Consensus       154 L~Ttd~~kil~tI~S--Rc-~~~~f~~Ls~~eI~~~L~~il~  192 (546)
T PRK14957        154 LATTDYHKIPVTILS--RC-IQLHLKHISQADIKDQLKIILA  192 (546)
T ss_pred             EEECChhhhhhhHHH--he-eeEEeCCCCHHHHHHHHHHHHH
Confidence            887889999999888  44 7899999998887777666543

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.44  E-value=1.9e-12  Score=138.45  Aligned_cols=144  Identities=17%  Similarity=0.293  Sum_probs=106.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-------------  254 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-------------  254 (431)
                      .|.+|++|+|.+++++.|.+.+..           | ..+..||||||||+|||++|+++|+.+++.             
T Consensus        11 RP~~f~~iiGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~   78 (576)
T PRK14965         11 RPQTFSDLTGQEHVSRTLQNAIDT-----------G-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPP   78 (576)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHH
Confidence            689999999999999888765531           1 245689999999999999999999998752             


Q ss_pred             -----------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          255 -----------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       255 -----------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                 ++.++..+....++++++.......              +.-+....+.||..|+..    .+.+++|+
T Consensus        79 c~~i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEep----p~~~~fIl  154 (576)
T PRK14965         79 CVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEP----PPHVKFIF  154 (576)
T ss_pred             HHHHhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcC----CCCeEEEE
Confidence                       4445544433445677766543322              333456678899999853    45588999


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +||.+++|.+.++.  |. ..++|..++.++....+...+.
T Consensus       155 ~t~~~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~L~~i~~  192 (576)
T PRK14965        155 ATTEPHKVPITILS--RC-QRFDFRRIPLQKIVDRLRYIAD  192 (576)
T ss_pred             EeCChhhhhHHHHH--hh-hhhhcCCCCHHHHHHHHHHHHH
Confidence            99999999999998  44 5788988888877766665543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.43  E-value=3.8e-12  Score=133.26  Aligned_cols=147  Identities=20%  Similarity=0.300  Sum_probs=104.2

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      ...|.+|++++|.+.+.+.|.+.+..            ...+..||||||||+|||++|+++|..+++            
T Consensus         9 kyRP~~f~diiGq~~i~~~L~~~i~~------------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c   76 (486)
T PRK14953          9 KYRPKFFKEVIGQEIVVRILKNAVKL------------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC   76 (486)
T ss_pred             hhCCCcHHHccChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc
Confidence            34789999999999998887665521            123468999999999999999999998864            


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++.++..+.+.++.+.......              +.-+....+.||..++..    ...+++
T Consensus        77 ~nc~~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEep----p~~~v~  152 (486)
T PRK14953         77 ENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEP----PPRTIF  152 (486)
T ss_pred             HHHHHHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcC----CCCeEE
Confidence                        23444443333344555554333221              223345567888888753    334777


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |++|+.++.+++++.+  |. ..+.|+.++.++....+...+..
T Consensus       153 Il~tt~~~kl~~tI~S--Rc-~~i~f~~ls~~el~~~L~~i~k~  193 (486)
T PRK14953        153 ILCTTEYDKIPPTILS--RC-QRFIFSKPTKEQIKEYLKRICNE  193 (486)
T ss_pred             EEEECCHHHHHHHHHH--hc-eEEEcCCCCHHHHHHHHHHHHHH
Confidence            7778888999999988  55 47999999999988888876653

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.43  E-value=3.4e-12  Score=140.53  Aligned_cols=146  Identities=21%  Similarity=0.259  Sum_probs=107.0

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      ...|.+|++|+|.+.+++.|...+..           | ..+..||||||+|||||++|++||+.|+|            
T Consensus         8 KyRP~~f~eiiGqe~v~~~L~~~i~~-----------~-ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C   75 (824)
T PRK07764          8 RYRPATFAEVIGQEHVTEPLSTALDS-----------G-RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGEC   75 (824)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCccc
Confidence            34799999999999998887665431           1 13457999999999999999999999974            


Q ss_pred             --------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCce
Q 035603          254 --------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       254 --------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                                    +++.++..+....++++++.......              +..+....+.||+.|+..    .+.+
T Consensus        76 ~sC~~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEp----P~~~  151 (824)
T PRK07764         76 DSCVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEP----PEHL  151 (824)
T ss_pred             HHHHHHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCC----CCCe
Confidence                          24445544333455666654332211              344556778899999864    3458


Q ss_pred             EEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       306 ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++|++||.+++|.++|+.  |. .+++|..++.+....+++..+.
T Consensus       152 ~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~l~~~~l~~~L~~il~  193 (824)
T PRK07764        152 KFIFATTEPDKVIGTIRS--RT-HHYPFRLVPPEVMRGYLERICA  193 (824)
T ss_pred             EEEEEeCChhhhhHHHHh--he-eEEEeeCCCHHHHHHHHHHHHH
Confidence            889999999999999988  44 6889999988888877777653

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.42  E-value=8.6e-12  Score=126.65  Aligned_cols=146  Identities=18%  Similarity=0.318  Sum_probs=103.1

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      --+|.+|++|+|.+.+++.+.+.+..           | ..+.+||||||||+|||++++++|+.+..            
T Consensus        10 k~rP~~~~~iig~~~~~~~l~~~i~~-----------~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~   77 (367)
T PRK14970         10 KYRPQTFDDVVGQSHITNTLLNAIEN-----------N-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSF   77 (367)
T ss_pred             HHCCCcHHhcCCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCc
Confidence            34799999999999988877665532           1 23568999999999999999999998754            


Q ss_pred             CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          254 DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       254 ~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                      +++.++.....+.+.+++++..+...              +.......+.|+..++..    +...++|++||.+..+.+
T Consensus        78 ~~~~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~----~~~~~~Il~~~~~~kl~~  153 (367)
T PRK14970         78 NIFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEP----PAHAIFILATTEKHKIIP  153 (367)
T ss_pred             ceEEeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCC----CCceEEEEEeCCcccCCH
Confidence            23334433333346677777654321              122334567788888753    334678888888899999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++.+  |. ..++++.|+.++...++.....
T Consensus       154 ~l~s--r~-~~v~~~~~~~~~l~~~l~~~~~  181 (367)
T PRK14970        154 TILS--RC-QIFDFKRITIKDIKEHLAGIAV  181 (367)
T ss_pred             HHHh--cc-eeEecCCccHHHHHHHHHHHHH
Confidence            9988  44 3689999998887777766443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.42  E-value=3.5e-12  Score=135.56  Aligned_cols=145  Identities=24%  Similarity=0.366  Sum_probs=104.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      .+|.+|++|+|++.+++.|...+..           | ..+..||||||||+|||++|+++|+.+++             
T Consensus        10 yRP~~f~diiGqe~iv~~L~~~i~~-----------~-~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~   77 (563)
T PRK06647         10 RRPRDFNSLEGQDFVVETLKHSIES-----------N-KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECS   77 (563)
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccch
Confidence            3699999999999999987765531           1 23568999999999999999999999875             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++...-..-+.++++.......              +.-+....+.||..++.    ++..+++|
T Consensus        78 ~C~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEe----pp~~~vfI  153 (563)
T PRK06647         78 SCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEE----PPPYIVFI  153 (563)
T ss_pred             HHHHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhcc----CCCCEEEE
Confidence                       23444433322335566655332211              33345567889988884    34558888


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++|+.+..|.++|..  |.. .++|..++.++...+++....
T Consensus       154 ~~tte~~kL~~tI~S--Rc~-~~~f~~l~~~el~~~L~~i~~  192 (563)
T PRK06647        154 FATTEVHKLPATIKS--RCQ-HFNFRLLSLEKIYNMLKKVCL  192 (563)
T ss_pred             EecCChHHhHHHHHH--hce-EEEecCCCHHHHHHHHHHHHH
Confidence            888889999999998  553 688999998888877776653

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

Probab=99.42  E-value=1.8e-12  Score=123.40  Aligned_cols=154  Identities=20%  Similarity=0.257  Sum_probs=117.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      .|.+|++.+|++++|+.+.=.+..-....        ...-.+|||||||.||||||..||+++|.++-..+...++...
T Consensus        21 RP~~l~efiGQ~~vk~~L~ifI~AAk~r~--------e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~g   92 (332)
T COG2255          21 RPKTLDEFIGQEKVKEQLQIFIKAAKKRG--------EALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPG   92 (332)
T ss_pred             CcccHHHhcChHHHHHHHHHHHHHHHhcC--------CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccChh
Confidence            58999999999999988755544433322        2335799999999999999999999999999999999998888


Q ss_pred             HHHHHHHHhhhc--------ccchhhHHHHHHHHhcCcc--------cCCC------CceEEEEecCCCCCCChhhhccC
Q 035603          268 ELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLW--------STCG------GERIIVFTTNHVDKLDPALIRRG  325 (431)
Q Consensus       268 ~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~--------~~~~------~~~ivI~TTN~~~~Ld~AllRpG  325 (431)
                      ++..++......        +.-+...-.-|.-+|+.+.        ++..      ...-+|++|.+...|...|..  
T Consensus        93 DlaaiLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrd--  170 (332)
T COG2255          93 DLAAILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRD--  170 (332)
T ss_pred             hHHHHHhcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHH--
Confidence            888888765554        2333334444445554321        1100      124689999999999999998  


Q ss_pred             ceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          326 RMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       326 Rfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ||....++.+.+.++...|+++.-..
T Consensus       171 RFGi~~rlefY~~~eL~~Iv~r~a~~  196 (332)
T COG2255         171 RFGIIQRLEFYTVEELEEIVKRSAKI  196 (332)
T ss_pred             hcCCeeeeecCCHHHHHHHHHHHHHH
Confidence            99999999999999999998877543

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

Probab=99.41  E-value=2.6e-12  Score=135.49  Aligned_cols=153  Identities=18%  Similarity=0.229  Sum_probs=113.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc------CChHHHHHHHHHhhhc-----------------
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV------ENNNELRSLLVDISSK-----------------  279 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~~~~-----------------  279 (431)
                      ++...-.+||||+||||||+++++.|.++|.+++.+++.++      .++..+...|..+...                 
T Consensus       427 ~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~  506 (953)
T KOG0736|consen  427 LLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQ  506 (953)
T ss_pred             ccccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecC
Confidence            34445579999999999999999999999999999999876      2345677777766544                 


Q ss_pred             ccc-hh---hHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch
Q 035603          280 KKK-SN---VTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE  355 (431)
Q Consensus       280 ~~~-~~---~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~  355 (431)
                      ++. ..   ..+..++. +|-.. .....+|+|+||+..+.|++.+.+  -|-..|.+|.|+.++|.++++.|+......
T Consensus       507 dgged~rl~~~i~~~ls-~e~~~-~~~~~~ivv~t~~s~~~lp~~i~~--~f~~ei~~~~lse~qRl~iLq~y~~~~~~n  582 (953)
T KOG0736|consen  507 DGGEDARLLKVIRHLLS-NEDFK-FSCPPVIVVATTSSIEDLPADIQS--LFLHEIEVPALSEEQRLEILQWYLNHLPLN  582 (953)
T ss_pred             CCchhHHHHHHHHHHHh-ccccc-CCCCceEEEEeccccccCCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHhccccc
Confidence            111 11   12333333 23222 234459999999999999999998  788899999999999999999998654433


Q ss_pred             hHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          356 LFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       356 ~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      .....+.++.. .||+.+|+..++.
T Consensus       583 ~~v~~k~~a~~t~gfs~~~L~~l~~  607 (953)
T KOG0736|consen  583 QDVNLKQLARKTSGFSFGDLEALVA  607 (953)
T ss_pred             hHHHHHHHHHhcCCCCHHHHHHHhc
Confidence            34445667764 4999999986655

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.40  E-value=4.8e-12  Score=134.45  Aligned_cols=147  Identities=18%  Similarity=0.245  Sum_probs=104.1

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------  254 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------  254 (431)
                      ....|.+|++|+|++.+++.|...+.    .       | ..+..|||+||||||||++|+++|+.+.+.          
T Consensus         8 ~KyRP~sf~dIiGQe~v~~~L~~ai~----~-------~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~   75 (624)
T PRK14959          8 ARYRPQTFAEVAGQETVKAILSRAAQ----E-------N-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNT   75 (624)
T ss_pred             HHhCCCCHHHhcCCHHHHHHHHHHHH----c-------C-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcc
Confidence            34579999999999999887765443    1       1 123589999999999999999999999763          


Q ss_pred             --------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceE
Q 035603          255 --------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       255 --------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                                    ++.++...-...+.++.+.......              +.-.....+.||..|+..    ...++
T Consensus        76 C~sC~~i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP----~~~~i  151 (624)
T PRK14959         76 CEQCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEP----PARVT  151 (624)
T ss_pred             cHHHHHHhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhcc----CCCEE
Confidence                          4555543322334555543222111              223345678889888853    34588


Q ss_pred             EEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       307 vI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|++||.+..+.+.+++  |+ .+|+|+.++.++...+++..+.
T Consensus       152 fILaTt~~~kll~TI~S--Rc-q~i~F~pLs~~eL~~~L~~il~  192 (624)
T PRK14959        152 FVLATTEPHKFPVTIVS--RC-QHFTFTRLSEAGLEAHLTKVLG  192 (624)
T ss_pred             EEEecCChhhhhHHHHh--hh-hccccCCCCHHHHHHHHHHHHH
Confidence            99999999999999988  55 4789999998888877776554

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.40  E-value=7.3e-12  Score=133.81  Aligned_cols=147  Identities=17%  Similarity=0.299  Sum_probs=107.4

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCe----------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDV----------  255 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i----------  255 (431)
                      ...|.+|++|+|.+.+++.|.+.+.   .        | ..+.++|||||||+|||++|+++|+.+++..          
T Consensus        17 KyRP~~f~dliGq~~~v~~L~~~~~---~--------g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~   84 (598)
T PRK09111         17 KYRPQTFDDLIGQEAMVRTLTNAFE---T--------G-RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID   84 (598)
T ss_pred             hhCCCCHHHhcCcHHHHHHHHHHHH---c--------C-CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc
Confidence            4578999999999999988766443   1        2 2356899999999999999999999987532          


Q ss_pred             -------------------EEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCC
Q 035603          256 -------------------YDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCG  302 (431)
Q Consensus       256 -------------------~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~  302 (431)
                                         +.++..+..+.+.+++++......              +.-+....+.||..|+..    .
T Consensus        85 ~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEeP----p  160 (598)
T PRK09111         85 LCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEP----P  160 (598)
T ss_pred             cCcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhC----C
Confidence                               233333323446677776554322              233455688899988853    4


Q ss_pred             CceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       303 ~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +.+++|++|+.++++.+.++.  |. ..++|..++.++....++..+..
T Consensus       161 ~~~~fIl~tte~~kll~tI~S--Rc-q~~~f~~l~~~el~~~L~~i~~k  206 (598)
T PRK09111        161 PHVKFIFATTEIRKVPVTVLS--RC-QRFDLRRIEADVLAAHLSRIAAK  206 (598)
T ss_pred             CCeEEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHHHHH
Confidence            458888888999999999987  54 57999999998888877776543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.40  E-value=1.1e-11  Score=130.36  Aligned_cols=146  Identities=19%  Similarity=0.266  Sum_probs=107.7

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -+|.+|++|+|++.+++.|...+.    .       | ..+..||||||||+|||++|+++|+.+.+             
T Consensus         8 yRP~~fdeiiGqe~v~~~L~~~I~----~-------g-rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~   75 (535)
T PRK08451          8 YRPKHFDELIGQESVSKTLSLALD----N-------N-RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCI   75 (535)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHH----c-------C-CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            468999999999999888776552    1       1 24568999999999999999999998742             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++.++-.+-+.++.+.......              +.-+....+.||..|+..    +..+.+|
T Consensus        76 ~C~~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEp----p~~t~FI  151 (535)
T PRK08451         76 QCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEP----PSYVKFI  151 (535)
T ss_pred             HHHHHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhc----CCceEEE
Confidence                       35555544323456777776543211              334566788899998854    3447788


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++|+.+.+|.++++.  |. .+++|..++.++....+...+..
T Consensus       152 L~ttd~~kL~~tI~S--Rc-~~~~F~~Ls~~ei~~~L~~Il~~  191 (535)
T PRK08451        152 LATTDPLKLPATILS--RT-QHFRFKQIPQNSIISHLKTILEK  191 (535)
T ss_pred             EEECChhhCchHHHh--hc-eeEEcCCCCHHHHHHHHHHHHHH
Confidence            888889999999998  53 68999999988887777766543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.40  E-value=1e-11  Score=133.02  Aligned_cols=144  Identities=16%  Similarity=0.301  Sum_probs=101.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-------------  254 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-------------  254 (431)
                      .|.+|++|+|++.+++.|...+.    .        -..+.+|||+||||||||++|+++|+.+.+.             
T Consensus        11 RP~~f~eivGQe~i~~~L~~~i~----~--------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~   78 (620)
T PRK14954         11 RPSKFADITAQEHITHTIQNSLR----M--------DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVT   78 (620)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHH----c--------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccC
Confidence            68999999999999887755332    1        1345689999999999999999999999772             


Q ss_pred             -------------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCC
Q 035603          255 -------------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTC  301 (431)
Q Consensus       255 -------------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~  301 (431)
                                         ++.++.......++++.+.......              +.-+....+.||..|+..    
T Consensus        79 ~~Cg~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEeP----  154 (620)
T PRK14954         79 EPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEP----  154 (620)
T ss_pred             CCCccCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCC----
Confidence                               2223332222345677665444221              223344577889888854    


Q ss_pred             CCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       302 ~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .+..++|++|+.+.+|.+++.++|   ..|+|..++.++....+...+.
T Consensus       155 p~~tv~IL~t~~~~kLl~TI~SRc---~~vef~~l~~~ei~~~L~~i~~  200 (620)
T PRK14954        155 PPHAIFIFATTELHKIPATIASRC---QRFNFKRIPLDEIQSQLQMICR  200 (620)
T ss_pred             CCCeEEEEEeCChhhhhHHHHhhc---eEEecCCCCHHHHHHHHHHHHH
Confidence            344777778888899999999844   6899999998887766665543

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.39  E-value=5.5e-12  Score=129.43  Aligned_cols=145  Identities=18%  Similarity=0.307  Sum_probs=100.9

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD------------  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------  254 (431)
                      -.|.+|++|+|++.+++.|...+.    .       | ..+.+||||||||+|||++|+++|+.+.+.            
T Consensus        10 ~RP~~~~eiiGq~~~~~~L~~~~~----~-------~-~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~   77 (397)
T PRK14955         10 YRPKKFADITAQEHITRTIQNSLR----M-------G-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEV   77 (397)
T ss_pred             cCCCcHhhccChHHHHHHHHHHHH----h-------C-CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccC
Confidence            469999999999999887765443    1       2 235589999999999999999999998762            


Q ss_pred             --------------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccC
Q 035603          255 --------------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWST  300 (431)
Q Consensus       255 --------------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~  300 (431)
                                          ++.++.......+.++++.......              +.-+....+.||..++..   
T Consensus        78 ~~~c~~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep---  154 (397)
T PRK14955         78 TEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEP---  154 (397)
T ss_pred             CCCCCCCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcC---
Confidence                                3333333322345666665444221              222334567788888743   


Q ss_pred             CCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          301 CGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       301 ~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                       .+..++|++|+.+..|-+++.+  |. ..++|+.++.++....+...+.
T Consensus       155 -~~~t~~Il~t~~~~kl~~tl~s--R~-~~v~f~~l~~~ei~~~l~~~~~  200 (397)
T PRK14955        155 -PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPLEEIQQQLQGICE  200 (397)
T ss_pred             -CCCeEEEEEeCChHHhHHHHHH--HH-HHhhcCCCCHHHHHHHHHHHHH
Confidence             3447777788888899999988  44 3688999988887777666553

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.39  E-value=1.4e-11  Score=128.13  Aligned_cols=145  Identities=18%  Similarity=0.230  Sum_probs=101.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -.|.+|++|+|.+.+++.|.+.+..           | ..+..||||||||+|||++|+++|+.+.+             
T Consensus        11 yRP~~~~diiGq~~~v~~L~~~i~~-----------~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c   78 (451)
T PRK06305         11 YRPQTFSEILGQDAVVAVLKNALRF-----------N-RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQC   78 (451)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCccc
Confidence            3689999999999998877665431           1 24568999999999999999999998754             


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhh-----c---------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISS-----K---------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~-----~---------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++.....+.+.++.+......     .         +.......+.||..|+..    .+.+++
T Consensus        79 ~~C~~i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep----~~~~~~  154 (451)
T PRK06305         79 ASCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEP----PQHVKF  154 (451)
T ss_pred             HHHHHHhcCCCCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcC----CCCceE
Confidence                        2444443322233455544322211     1         222334567788888853    345788


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |++||.+..|.+++.+  |. ..++|+.++.++....+...+.
T Consensus       155 Il~t~~~~kl~~tI~s--Rc-~~v~f~~l~~~el~~~L~~~~~  194 (451)
T PRK06305        155 FLATTEIHKIPGTILS--RC-QKMHLKRIPEETIIDKLALIAK  194 (451)
T ss_pred             EEEeCChHhcchHHHH--hc-eEEeCCCCCHHHHHHHHHHHHH
Confidence            8888999999999998  55 4799999998887777666543

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

Probab=99.38  E-value=1.5e-12  Score=125.07  Aligned_cols=135  Identities=23%  Similarity=0.336  Sum_probs=93.5

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------CeEEe
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------DVYDL  258 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------~i~~l  258 (431)
                      ....|.+|++++|++.+.+.|.+.+.. ..            -..|||||||||||||.|+|+|.++..      .++.+
T Consensus        28 eKYrPkt~de~~gQe~vV~~L~~a~~~-~~------------lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~l   94 (346)
T KOG0989|consen   28 EKYRPKTFDELAGQEHVVQVLKNALLR-RI------------LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLEL   94 (346)
T ss_pred             HHhCCCcHHhhcchHHHHHHHHHHHhh-cC------------CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhh
Confidence            566899999999999999998877654 11            126999999999999999999999876      24445


Q ss_pred             cccCcCChHHHH-------HHHHHhhhc----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          259 ELTSVENNNELR-------SLLVDISSK----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       259 ~~~~~~~~~~l~-------~l~~~~~~~----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                      +.++-.+..-++       ++.......                +.-.....+.|.+.|+..    ...+.+|+.||.++
T Consensus        95 naSderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~----s~~trFiLIcnyls  170 (346)
T KOG0989|consen   95 NASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDF----SRTTRFILICNYLS  170 (346)
T ss_pred             cccccccccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhcc----ccceEEEEEcCChh
Confidence            555432222111       111111100                334456778899999964    23488999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHH
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFE  339 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~  339 (431)
                      +|++.+..  |. .++.|+....+
T Consensus       171 rii~pi~S--RC-~KfrFk~L~d~  191 (346)
T KOG0989|consen  171 RIIRPLVS--RC-QKFRFKKLKDE  191 (346)
T ss_pred             hCChHHHh--hH-HHhcCCCcchH
Confidence            99999998  55 35566655443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.38  E-value=9.1e-12  Score=128.50  Aligned_cols=141  Identities=23%  Similarity=0.355  Sum_probs=101.1

Q ss_pred             cCCCCccccccChhhHHH---HHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          187 EHPATFDTLAMASKKKEA---IKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~---i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -+|.+|++++|.+++...   |.+.+    ..         ....++||+||||||||++|+++|+.++.+++.++....
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i----~~---------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~   72 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMI----EA---------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS   72 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHH----Hc---------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc
Confidence            478999999999888555   44433    21         123479999999999999999999999999999987654


Q ss_pred             CChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEec--CCCCCCChhhhccCce
Q 035603          264 ENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT--NHVDKLDPALIRRGRM  327 (431)
Q Consensus       264 ~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT--N~~~~Ld~AllRpGRf  327 (431)
                       +.+.++.++......              +.........|+..++.      +.+++|++|  |....++++|++  |+
T Consensus        73 -~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~------~~iilI~att~n~~~~l~~aL~S--R~  143 (413)
T PRK13342         73 -GVKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED------GTITLIGATTENPSFEVNPALLS--RA  143 (413)
T ss_pred             -cHHHHHHHHHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc------CcEEEEEeCCCChhhhccHHHhc--cc
Confidence             345566666554321              12223345567777653      235666654  445689999999  77


Q ss_pred             eEEEEcCCCCHHHHHHHHHHhhc
Q 035603          328 DKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       328 d~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                       ..+.++.++.++...+++..+.
T Consensus       144 -~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342        144 -QVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             -eeeEeCCCCHHHHHHHHHHHHH
Confidence             6789999999999988888764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.35  E-value=2.5e-11  Score=130.49  Aligned_cols=145  Identities=23%  Similarity=0.334  Sum_probs=104.3

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      ...|.+|++|+|.+.+++.|...+..           | ....+||||||||||||++|+++|+.+++            
T Consensus         9 kyRP~~f~~liGq~~i~~~L~~~l~~-----------~-rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg   76 (620)
T PRK14948          9 KYRPQRFDELVGQEAIATTLKNALIS-----------N-RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCG   76 (620)
T ss_pred             HhCCCcHhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCc
Confidence            34789999999999998887665532           1 12358999999999999999999999876            


Q ss_pred             --------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCce
Q 035603          254 --------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       254 --------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                                    +++.++.......+.+++++..+...              +.-+....+.||..|+.    +.+.+
T Consensus        77 ~C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEe----Pp~~t  152 (620)
T PRK14948         77 KCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEE----PPPRV  152 (620)
T ss_pred             ccHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhc----CCcCe
Confidence                          33444443323446777777554322              23345577889999984    34458


Q ss_pred             EEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       306 ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ++|++|++++.|.++|+.  |. ..++|+.++.++....+....
T Consensus       153 vfIL~t~~~~~llpTIrS--Rc-~~~~f~~l~~~ei~~~L~~ia  193 (620)
T PRK14948        153 VFVLATTDPQRVLPTIIS--RC-QRFDFRRIPLEAMVQHLSEIA  193 (620)
T ss_pred             EEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHHH
Confidence            888888999999999987  54 568888888777665555443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.35  E-value=2.7e-11  Score=130.22  Aligned_cols=146  Identities=17%  Similarity=0.308  Sum_probs=107.9

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC------------
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------------  253 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~------------  253 (431)
                      ...|.+|++|+|.+.+++.|...+..           | ..+..||||||+|+|||++|+++|+.+.+            
T Consensus        10 kyRP~~f~~viGq~~~~~~L~~~i~~-----------~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~   77 (614)
T PRK14971         10 KYRPSTFESVVGQEALTTTLKNAIAT-----------N-KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNE   77 (614)
T ss_pred             HHCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCc
Confidence            34789999999999999887765531           1 24568999999999999999999998753            


Q ss_pred             -------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceE
Q 035603          254 -------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       254 -------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                                   +++.++..+....+.++.++..+...              +.-+....+.||..|+..    .+..+
T Consensus        78 C~sC~~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEep----p~~ti  153 (614)
T PRK14971         78 CESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEP----PSYAI  153 (614)
T ss_pred             chHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCC----CCCeE
Confidence                         45556655434456677776544322              233455678899998854    34478


Q ss_pred             EEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       307 vI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|++|+.+.+|-++|+.  |. ..++|..++.++....++..+.
T Consensus       154 fIL~tt~~~kIl~tI~S--Rc-~iv~f~~ls~~ei~~~L~~ia~  194 (614)
T PRK14971        154 FILATTEKHKILPTILS--RC-QIFDFNRIQVADIVNHLQYVAS  194 (614)
T ss_pred             EEEEeCCchhchHHHHh--hh-heeecCCCCHHHHHHHHHHHHH
Confidence            88888888999999998  44 5699999998888777766544

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.32  E-value=5e-11  Score=119.08  Aligned_cols=149  Identities=16%  Similarity=0.214  Sum_probs=96.0

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----C
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----D  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----~  254 (431)
                      .|.  .--.|.+|++++|.+++++.+...+.    .       +.  ..++|||||||||||++|+++|+++..     +
T Consensus         4 ~w~--~ky~P~~~~~~~g~~~~~~~L~~~~~----~-------~~--~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~   68 (337)
T PRK12402          4 LWT--EKYRPALLEDILGQDEVVERLSRAVD----S-------PN--LPHLLVQGPPGSGKTAAVRALARELYGDPWENN   68 (337)
T ss_pred             chH--HhhCCCcHHHhcCCHHHHHHHHHHHh----C-------CC--CceEEEECCCCCCHHHHHHHHHHHhcCcccccc
Confidence            454  45579999999999998887765442    1       11  126999999999999999999998843     4


Q ss_pred             eEEecccCcCC--------------------------hHHHHHHHHHhhh--------c-------ccchhhHHHHHHHH
Q 035603          255 VYDLELTSVEN--------------------------NNELRSLLVDISS--------K-------KKKSNVTLSGLLNC  293 (431)
Q Consensus       255 i~~l~~~~~~~--------------------------~~~l~~l~~~~~~--------~-------~~~~~~~~s~lL~~  293 (431)
                      ++.+++.++..                          .+.++.+......        +       +.-.......|+..
T Consensus        69 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~  148 (337)
T PRK12402         69 FTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRI  148 (337)
T ss_pred             eEEechhhhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHH
Confidence            56666654310                          1112222211111        0       11122334556666


Q ss_pred             hcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          294 IGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       294 ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++...    ....+|+||+.+..+.++|.+  |. ..+++++|+.++...+++....
T Consensus       149 le~~~----~~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~~~~~~~~~~l~~~~~  198 (337)
T PRK12402        149 MEQYS----RTCRFIIATRQPSKLIPPIRS--RC-LPLFFRAPTDDELVDVLESIAE  198 (337)
T ss_pred             HHhcc----CCCeEEEEeCChhhCchhhcC--Cc-eEEEecCCCHHHHHHHHHHHHH
Confidence            66432    224566677777788888887  54 5789999999988888887654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.31  E-value=5.7e-11  Score=127.57  Aligned_cols=145  Identities=17%  Similarity=0.332  Sum_probs=101.4

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      ..|.+|++|+|++.+++.|...+..           | ..+..||||||||+|||++|+++|+.+++             
T Consensus        10 yRP~~~~eiiGq~~~~~~L~~~i~~-----------~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c   77 (585)
T PRK14950         10 WRSQTFAELVGQEHVVQTLRNAIAE-----------G-RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTC   77 (585)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccC
Confidence            4799999999999999887655431           1 13457999999999999999999998864             


Q ss_pred             ------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 ------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                                  +++.++.+.....+.++++.......              +.-.....+.||..|+..    ....++
T Consensus        78 ~~c~~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEep----p~~tv~  153 (585)
T PRK14950         78 EMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEP----PPHAIF  153 (585)
T ss_pred             HHHHHHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcC----CCCeEE
Confidence                        23334443333345566654332221              222345677888888854    344788


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |++|+.++.+.+.+.+  |. ..++|..++..+...++.....
T Consensus       154 Il~t~~~~kll~tI~S--R~-~~i~f~~l~~~el~~~L~~~a~  193 (585)
T PRK14950        154 ILATTEVHKVPATILS--RC-QRFDFHRHSVADMAAHLRKIAA  193 (585)
T ss_pred             EEEeCChhhhhHHHHh--cc-ceeeCCCCCHHHHHHHHHHHHH
Confidence            8888888889999987  44 4688999988887777666543

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

Probab=99.31  E-value=1.2e-11  Score=128.56  Aligned_cols=146  Identities=19%  Similarity=0.327  Sum_probs=109.2

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-------------
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-------------  254 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-------------  254 (431)
                      +|.+|++|+|++.+.+.|.+.+..-.            ...+|||.||.||||||+||.+|+.+++.             
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~~r------------i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~   78 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALENGR------------IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCIS   78 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHhCc------------chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhh
Confidence            58999999999999998877653211            23589999999999999999999998864             


Q ss_pred             -----------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          255 -----------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       255 -----------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                                 ++.+|..+-.+-++++++.....-.              +.-+...++.||..+..    +...+++|+
T Consensus        79 Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEE----PP~hV~FIl  154 (515)
T COG2812          79 CKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEE----PPSHVKFIL  154 (515)
T ss_pred             hHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhccccc----CccCeEEEE
Confidence                       2222332323446677776655433              45567888999999884    456699999


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      +|..++++++.++.  |. .+..|..-+.+.....++..+..+
T Consensus       155 ATTe~~Kip~TIlS--Rc-q~f~fkri~~~~I~~~L~~i~~~E  194 (515)
T COG2812         155 ATTEPQKIPNTILS--RC-QRFDFKRLDLEEIAKHLAAILDKE  194 (515)
T ss_pred             ecCCcCcCchhhhh--cc-ccccccCCCHHHHHHHHHHHHHhc
Confidence            99999999999997  33 456677888888877777777643

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.30  E-value=7.5e-11  Score=114.40  Aligned_cols=136  Identities=19%  Similarity=0.213  Sum_probs=91.9

Q ss_pred             hHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHH----------
Q 035603          201 KKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELR----------  270 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~----------  270 (431)
                      ..+.+.+.+..++..           .+.+||+||||||||++|+++|..+|.+++.+++..-.+..++-          
T Consensus         6 ~~~~l~~~~l~~l~~-----------g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~   74 (262)
T TIGR02640         6 AVKRVTSRALRYLKS-----------GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKK   74 (262)
T ss_pred             HHHHHHHHHHHHHhc-----------CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhh
Confidence            344455555555542           35799999999999999999999999999998776532222110          


Q ss_pred             ---HH-------------------HHHhhhc---------ccchhhHHHHHHHHhcCcc-cC-----------CCCceEE
Q 035603          271 ---SL-------------------LVDISSK---------KKKSNVTLSGLLNCIGGLW-ST-----------CGGERII  307 (431)
Q Consensus       271 ---~l-------------------~~~~~~~---------~~~~~~~~s~lL~~ldg~~-~~-----------~~~~~iv  307 (431)
                         .+                   +..+...         +.....+.+.|+..|+.-. .-           ...+..|
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frv  154 (262)
T TIGR02640        75 VHDQFIHNVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRV  154 (262)
T ss_pred             HHHHHHHHhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEE
Confidence               00                   0111111         2344567777888886421 00           1124568


Q ss_pred             EEecCCCC-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |+|+|...     .+++||++  || ..+.+++|+.+...+|++...+
T Consensus       155 IaTsN~~~~~g~~~l~~aL~~--R~-~~i~i~~P~~~~e~~Il~~~~~  199 (262)
T TIGR02640       155 IFTSNPVEYAGVHETQDALLD--RL-ITIFMDYPDIDTETAILRAKTD  199 (262)
T ss_pred             EEeeCCccccceecccHHHHh--hc-EEEECCCCCHHHHHHHHHHhhC
Confidence            99999763     67999999  88 7899999999998889888764

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).

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

Probab=99.30  E-value=3.3e-11  Score=131.92  Aligned_cols=151  Identities=17%  Similarity=0.270  Sum_probs=105.8

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHH
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      .|+|+++.++.|.+.+.....+-   ...+. +...+||+||||||||.+|+++|..++.+++.++++.......+.+++
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl---~~~~k-p~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~Li  534 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGL---GHEHK-PVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLI  534 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccc---cCCCC-CcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHc
Confidence            47899999998888776543210   00011 123689999999999999999999999999999988764433333333


Q ss_pred             H---------------Hhhh----c-------ccchhhHHHHHHHHhcC-cccCC-C-----CceEEEEecCCC------
Q 035603          274 V---------------DISS----K-------KKKSNVTLSGLLNCIGG-LWSTC-G-----GERIIVFTTNHV------  314 (431)
Q Consensus       274 ~---------------~~~~----~-------~~~~~~~~s~lL~~ldg-~~~~~-~-----~~~ivI~TTN~~------  314 (431)
                      .               +...    .       +..+....+.||+.||. .-... +     .+.+||+|||.-      
T Consensus       535 G~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~  614 (758)
T PRK11034        535 GAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETER  614 (758)
T ss_pred             CCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhh
Confidence            2               1111    1       33445677889999873 21111 1     357899999922      


Q ss_pred             -------------------CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          315 -------------------DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       315 -------------------~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                         ..+.|+|+.  |+|..|.|++.+.+....|+..++.
T Consensus       615 ~~~g~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I~~~~l~  667 (758)
T PRK11034        615 KSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_pred             cccCcccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHHHHHHHH
Confidence                               236688888  9999999999999999999988774

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.28  E-value=5e-11  Score=126.47  Aligned_cols=152  Identities=21%  Similarity=0.251  Sum_probs=101.2

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYD  254 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~  254 (431)
                      ..-+|.+|++++|.+...+.+...+    .         .+.+..+||+||||||||++|+++.+++          +.+
T Consensus        57 ~~~rp~~f~~iiGqs~~i~~l~~al----~---------~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~  123 (531)
T TIGR02902        57 EKTRPKSFDEIIGQEEGIKALKAAL----C---------GPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAA  123 (531)
T ss_pred             HhhCcCCHHHeeCcHHHHHHHHHHH----h---------CCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCC
Confidence            4457899999999998887776432    1         1235689999999999999999998753          357


Q ss_pred             eEEecccCcC-ChHHHH-HHH---------------------------HHhhhc-------ccchhhHHHHHHHHhcCcc
Q 035603          255 VYDLELTSVE-NNNELR-SLL---------------------------VDISSK-------KKKSNVTLSGLLNCIGGLW  298 (431)
Q Consensus       255 i~~l~~~~~~-~~~~l~-~l~---------------------------~~~~~~-------~~~~~~~~s~lL~~ldg~~  298 (431)
                      ++.++++... +...+. .++                           ..+...       +.-+....+.||..|+.-.
T Consensus       124 fi~id~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~  203 (531)
T TIGR02902       124 FVEIDATTARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRK  203 (531)
T ss_pred             EEEEccccccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCe
Confidence            8888876421 111111 010                           011111       2234456677777764210


Q ss_pred             --------c-----------------CCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          299 --------S-----------------TCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       299 --------~-----------------~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                              +                 .+.+-++|++|||.++.|+|++++  |+ ..|.|+.++.+++..++++.+...
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~-~~I~f~pL~~eei~~Il~~~a~k~  279 (531)
T TIGR02902       204 VFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RC-VEIFFRPLLDEEIKEIAKNAAEKI  279 (531)
T ss_pred             eeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hh-heeeCCCCCHHHHHHHHHHHHHHc
Confidence                    0                 011226777888999999999999  77 478899999999999999987643

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.

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

Probab=99.28  E-value=4e-11  Score=132.02  Aligned_cols=146  Identities=21%  Similarity=0.216  Sum_probs=105.2

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHH---
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELR---  270 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~---  270 (431)
                      +..|.+++|+.|++.+......       +......++|+||||||||++++++|+.++.+++.++++.+.+...+.   
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            3799999999998877644332       122344689999999999999999999999999999888765444332   


Q ss_pred             ------------HHHHHhhhc-------------ccchhhHHHHHHHHhcCcc-----------cCCCCceEEEEecCCC
Q 035603          271 ------------SLLVDISSK-------------KKKSNVTLSGLLNCIGGLW-----------STCGGERIIVFTTNHV  314 (431)
Q Consensus       271 ------------~l~~~~~~~-------------~~~~~~~~s~lL~~ldg~~-----------~~~~~~~ivI~TTN~~  314 (431)
                                  +.+..+...             ........+.||..+|.-.           ...-+++++|+|||..
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                        222222111             1111224678888887410           0112468999999987


Q ss_pred             CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          315 DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                       .|+|||+.  ||+ .|.++.++.++..+|++.|+.
T Consensus       476 -~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        476 -NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             -CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhhh
Confidence             59999999  996 688999999999999999984

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

Probab=99.26  E-value=1.8e-10  Score=107.48  Aligned_cols=162  Identities=19%  Similarity=0.264  Sum_probs=129.1

Q ss_pred             ceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEE
Q 035603          181 WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYD  257 (431)
Q Consensus       181 w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~  257 (431)
                      ...++-.+|..+.+|+|-+.+|+.|.+....|...        . +...+||+|..|||||||++|+-+++   +..++.
T Consensus        48 L~pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G--------~-pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVE  118 (287)
T COG2607          48 LEPVPDPDPIDLADLVGVDRQKEALVRNTEQFAEG--------L-PANNVLLWGARGTGKSSLVKALLNEYADEGLRLVE  118 (287)
T ss_pred             ccCCCCCCCcCHHHHhCchHHHHHHHHHHHHHHcC--------C-cccceEEecCCCCChHHHHHHHHHHHHhcCCeEEE
Confidence            44556667789999999999999999999999874        2 24689999999999999999998876   567888


Q ss_pred             ecccCcCChHHHHHHHHHhhhc---------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhh-c----
Q 035603          258 LELTSVENNNELRSLLVDISSK---------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALI-R----  323 (431)
Q Consensus       258 l~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~All-R----  323 (431)
                      ++-.++.+-..|.+.+.....+         ..........|-..|||-......+|+|.+|+|+-..|+.-+. +    
T Consensus       119 V~k~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~  198 (287)
T COG2607         119 VDKEDLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGST  198 (287)
T ss_pred             EcHHHHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCcc
Confidence            8888776666666666665555         3445667778888999988888889999999998877664322 1    


Q ss_pred             ---------------cCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          324 ---------------RGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       324 ---------------pGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                                     .-||...+-|..|+.+....|+.+|...
T Consensus       199 ~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~  241 (287)
T COG2607         199 GEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKH  241 (287)
T ss_pred             cccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHH
Confidence                           1289999999999999999999888753

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.26  E-value=2.9e-10  Score=112.67  Aligned_cols=150  Identities=19%  Similarity=0.196  Sum_probs=99.8

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-----CC
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-----YD  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-----~~  254 (431)
                      .|.  +...|.+|++++|.+++++.+...+.    .       +.  ...+|||||||||||++++++++++.     ..
T Consensus         6 ~w~--~kyrP~~~~~~~g~~~~~~~l~~~i~----~-------~~--~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~   70 (319)
T PRK00440          6 IWV--EKYRPRTLDEIVGQEEIVERLKSYVK----E-------KN--MPHLLFAGPPGTGKTTAALALARELYGEDWREN   70 (319)
T ss_pred             ccc--hhhCCCcHHHhcCcHHHHHHHHHHHh----C-------CC--CCeEEEECCCCCCHHHHHHHHHHHHcCCccccc
Confidence            465  66789999999999988887766542    1       11  12589999999999999999999873     23


Q ss_pred             eEEecccCcCChHHHHHHHHHhhh---------c-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          255 VYDLELTSVENNNELRSLLVDISS---------K-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l~~~~~~---------~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                      ++.++.++......+...+.....         +       +.-.......|+..++...    ....+|+++|.+..+.
T Consensus        71 ~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~----~~~~lIl~~~~~~~l~  146 (319)
T PRK00440         71 FLELNASDERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYS----QNTRFILSCNYSSKII  146 (319)
T ss_pred             eEEeccccccchHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCC----CCCeEEEEeCCccccc
Confidence            455554443322223222221111         1       1112334556777776542    2356777888888888


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +++.+  |+. .++++.++.++...++..++..
T Consensus       147 ~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~  176 (319)
T PRK00440        147 DPIQS--RCA-VFRFSPLKKEAVAERLRYIAEN  176 (319)
T ss_pred             hhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHH
Confidence            88888  554 5899999999888888877654

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.25  E-value=5.1e-10  Score=111.34  Aligned_cols=140  Identities=15%  Similarity=0.252  Sum_probs=99.9

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--------CeEEecccC
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--------DVYDLELTS  262 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--------~i~~l~~~~  262 (431)
                      +|++|+|.+.+++.|.+.+.            ....+..|||+||+|+|||++|+++|..+.+        +++.+...+
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~------------~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~   69 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSII------------KNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN   69 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHH------------cCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc
Confidence            58999999999888876542            1234568999999999999999999998743        344443311


Q ss_pred             --cCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCc
Q 035603          263 --VENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGR  326 (431)
Q Consensus       263 --~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGR  326 (431)
                        .-..+.++++.......              +..+....+.||..|+.    +++..++|++|++++.|.|++..++ 
T Consensus        70 ~~~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEe----pp~~t~~il~~~~~~~ll~TI~SRc-  144 (313)
T PRK05564         70 KKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEE----PPKGVFIILLCENLEQILDTIKSRC-  144 (313)
T ss_pred             CCCCCHHHHHHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcC----CCCCeEEEEEeCChHhCcHHHHhhc-
Confidence              11335677766533322              22344567889999884    3455888888899999999999844 


Q ss_pred             eeEEEEcCCCCHHHHHHHHHHhh
Q 035603          327 MDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       327 fd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                        ..++|+.|+.++....+...+
T Consensus       145 --~~~~~~~~~~~~~~~~l~~~~  165 (313)
T PRK05564        145 --QIYKLNRLSKEEIEKFISYKY  165 (313)
T ss_pred             --eeeeCCCcCHHHHHHHHHHHh
Confidence              589999999888777666543

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

Probab=99.24  E-value=4e-11  Score=131.97  Aligned_cols=141  Identities=22%  Similarity=0.271  Sum_probs=100.4

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|..++.++|.++..+.+.+.+    ..         ..+.++||+||||||||++++++|..+          +..++.
T Consensus       177 r~~~l~~~igr~~ei~~~~~~L----~~---------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~  243 (731)
T TIGR02639       177 KNGKIDPLIGREDELERTIQVL----CR---------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS  243 (731)
T ss_pred             hcCCCCcccCcHHHHHHHHHHH----hc---------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE
Confidence            4667899999887777655433    21         235689999999999999999999987          788999


Q ss_pred             ecccCcCC--------hHHHHHHHHHhhhc-------c-----------cchhhH-HHHHHHHhcCcccCCCCceEEEEe
Q 035603          258 LELTSVEN--------NNELRSLLVDISSK-------K-----------KKSNVT-LSGLLNCIGGLWSTCGGERIIVFT  310 (431)
Q Consensus       258 l~~~~~~~--------~~~l~~l~~~~~~~-------~-----------~~~~~~-~s~lL~~ldg~~~~~~~~~ivI~T  310 (431)
                      ++++.+..        ...+++++.++...       +           ...... .+-|+..+.      .+++.+|++
T Consensus       244 ~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~------~g~i~~Iga  317 (731)
T TIGR02639       244 LDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS------SGKLRCIGS  317 (731)
T ss_pred             ecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh------CCCeEEEEe
Confidence            88766531        25678888765432       0           011111 223333332      245889999


Q ss_pred             cCCC-----CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          311 TNHV-----DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       311 TN~~-----~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ||..     ..+|+||.|  ||. .|+++.|+.+++..|++....
T Consensus       318 Tt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~  359 (731)
T TIGR02639       318 TTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLKE  359 (731)
T ss_pred             cCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHHH
Confidence            8864     358999999  997 799999999999999986543

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

Probab=99.23  E-value=1.5e-10  Score=121.39  Aligned_cols=175  Identities=13%  Similarity=0.153  Sum_probs=120.2

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC----CeEEecccCcCCh--
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY----DVYDLELTSVENN--  266 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~----~i~~l~~~~~~~~--  266 (431)
                      .+++..+..|++.-++...+           +..+..+||+||+|||||.|++++++++..    .+..++++.+...  
T Consensus       408 ~d~i~~~s~kke~~n~~~sp-----------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~  476 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP-----------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSL  476 (952)
T ss_pred             Cceeecchhhhhhhhhhccc-----------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhH
Confidence            56666777777654432222           344568999999999999999999998764    3455677776432  


Q ss_pred             H----HHHHHHHHhhhc-----------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          267 N----ELRSLLVDISSK-----------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       267 ~----~l~~l~~~~~~~-----------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                      +    .++.+|.++...                       .......+..+|+.+-......+..+.+|+|.+....|+|
T Consensus       477 e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~  556 (952)
T KOG0735|consen  477 EKIQKFLNNVFSEALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNP  556 (952)
T ss_pred             HHHHHHHHHHHHHHHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcCh
Confidence            2    244455444332                       1112334555664443333334445789999999999999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcc-hhHHHHHhHhc-cCCCCHHHHHHHh
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESH-ELFHEIGSLLG-ETDITPADVAENL  378 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~-~~~~~i~~l~~-~~~~s~adI~~~l  378 (431)
                      -|..|++|+.++.+|.|+..+|.+|+++.+..... ...++++-++. +.||.+-|+.-++
T Consensus       557 ~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifV  617 (952)
T KOG0735|consen  557 LLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFV  617 (952)
T ss_pred             hhcCccceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHH
Confidence            99999999999999999999999999998864432 23445555555 4499999986443

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

Probab=99.21  E-value=1.4e-10  Score=122.34  Aligned_cols=163  Identities=26%  Similarity=0.298  Sum_probs=122.4

Q ss_pred             HhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc------CChHHHHHHHHHhhhc-------
Q 035603          213 TEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV------ENNNELRSLLVDISSK-------  279 (431)
Q Consensus       213 ~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~~~~-------  279 (431)
                      +..+..+...+..+++|++++||||||||++++++|++ +.....++...+      .....++.+|..+...       
T Consensus         4 ~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii~~   82 (494)
T COG0464           4 LKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSIIFI   82 (494)
T ss_pred             ccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeEee
Confidence            34577888999999999999999999999999999999 554444444433      1234455666554433       


Q ss_pred             --------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          280 --------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       280 --------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                                    ........++++..+|++.  .+. +++++.||.+..+|+++.|||||+..+.++.|+...+..+.
T Consensus        83 d~~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~~--~~~-v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ei~  159 (494)
T COG0464          83 DEIDALAPKRSSDQGEVERRVVAQLLALMDGLK--RGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEIL  159 (494)
T ss_pred             chhhhcccCccccccchhhHHHHHHHHhccccc--CCc-eEEEeecCCccccChhHhCccccceeeecCCCCHHHHHHHH
Confidence                          1233567899999999997  455 88889999999999999999999999999999999998887


Q ss_pred             HHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhc
Q 035603          346 KNYLEIESHELFHEIGSLLG-ETDITPADVAENLM  379 (431)
Q Consensus       346 ~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~  379 (431)
                      ..............+..++. ..|++++++..++.
T Consensus       160 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~l~~  194 (494)
T COG0464         160 QIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAK  194 (494)
T ss_pred             HHHHhcCCCcccccHHHHHHhcCCccHHHHHHHHH
Confidence            76654332222233445555 44899999987663

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

Probab=99.20  E-value=2.3e-10  Score=126.04  Aligned_cols=148  Identities=15%  Similarity=0.238  Sum_probs=103.3

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCc-eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKR-GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNE  268 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~r-g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~  268 (431)
                      +.|+|+++.++.|.+.+...        +.|..   .|. .+||+||||||||++|+++|..++.+++.++++.......
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            34678888877776655432        22332   133 4899999999999999999999999999999887543222


Q ss_pred             HHHHHH---------------Hh----hhc-------ccchhhHHHHHHHHhcCcccCC-------CCceEEEEecCCCC
Q 035603          269 LRSLLV---------------DI----SSK-------KKKSNVTLSGLLNCIGGLWSTC-------GGERIIVFTTNHVD  315 (431)
Q Consensus       269 l~~l~~---------------~~----~~~-------~~~~~~~~s~lL~~ldg~~~~~-------~~~~ivI~TTN~~~  315 (431)
                      +..++.               +.    ...       +..+....+.||+.+|.-.-..       -.+.+||+|||...
T Consensus       526 ~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~  605 (731)
T TIGR02639       526 VSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGA  605 (731)
T ss_pred             HHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcch
Confidence            222221               11    111       3445667888999887532111       12478999998631


Q ss_pred             -------------------------CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          316 -------------------------KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       316 -------------------------~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                               .+.|+|+.  |||..|.|.+.+.++...|++..+.
T Consensus       606 ~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~~Iv~~~L~  663 (731)
T TIGR02639       606 SEMSKPPIGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLEKIVQKFVD  663 (731)
T ss_pred             hhhhhccCCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHHHHHHHHHH
Confidence                                     25778876  9999999999999999999998875

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

Probab=99.20  E-value=1.1e-10  Score=127.29  Aligned_cols=144  Identities=20%  Similarity=0.265  Sum_probs=95.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCCh
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENN  266 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  266 (431)
                      -.|.+|++++|.+.+.... ..+...+..       +  ....+|||||||||||++|+++|+.++.+++.++.... ..
T Consensus        22 ~RP~tldd~vGQe~ii~~~-~~L~~~i~~-------~--~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~-~i   90 (725)
T PRK13341         22 LRPRTLEEFVGQDHILGEG-RLLRRAIKA-------D--RVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLA-GV   90 (725)
T ss_pred             cCCCcHHHhcCcHHHhhhh-HHHHHHHhc-------C--CCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhh-hh
Confidence            3599999999998876531 122222221       1  12378999999999999999999999999988887643 22


Q ss_pred             HHHHHHHHHhhh------c---------ccchhhHHHHHHHHhcCcccCCCCceEEEEec--CCCCCCChhhhccCceeE
Q 035603          267 NELRSLLVDISS------K---------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT--NHVDKLDPALIRRGRMDK  329 (431)
Q Consensus       267 ~~l~~l~~~~~~------~---------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT--N~~~~Ld~AllRpGRfd~  329 (431)
                      .+++..+.....      .         +.........|+..++.      +.+++|++|  |....+++++++++   .
T Consensus        91 ~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~------g~IiLI~aTTenp~~~l~~aL~SR~---~  161 (725)
T PRK13341         91 KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVEN------GTITLIGATTENPYFEVNKALVSRS---R  161 (725)
T ss_pred             HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhcC------ceEEEEEecCCChHhhhhhHhhccc---c
Confidence            334444433211      1         11223334556665542      236666654  34467999999843   4


Q ss_pred             EEEcCCCCHHHHHHHHHHhhc
Q 035603          330 HIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       330 ~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .+.++.++.+++..+++.++.
T Consensus       162 v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        162 LFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             ceecCCCCHHHHHHHHHHHHH
Confidence            689999999999999988775

>PRK06893 DNA replication initiation factor; Validated

Probab=99.19  E-value=3.8e-10  Score=107.26  Aligned_cols=151  Identities=12%  Similarity=0.138  Sum_probs=86.2

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      ....+.+|++.++.+..  .....+...      +   .......++||||||||||+|++|+|+++   +.....++..
T Consensus         8 ~~~~~~~fd~f~~~~~~--~~~~~~~~~------~---~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~   76 (229)
T PRK06893          8 HQIDDETLDNFYADNNL--LLLDSLRKN------F---IDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS   76 (229)
T ss_pred             CCCCcccccccccCChH--HHHHHHHHH------h---hccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence            44566899999876542  122222111      1   11123468999999999999999999986   3344444443


Q ss_pred             CcCChHHHHHHHHHhhhc-----cc-----chhhHHHHHHHHhcCcccCCCCceEEEEec-CCCCCCC---hhhhccCce
Q 035603          262 SVENNNELRSLLVDISSK-----KK-----KSNVTLSGLLNCIGGLWSTCGGERIIVFTT-NHVDKLD---PALIRRGRM  327 (431)
Q Consensus       262 ~~~~~~~l~~l~~~~~~~-----~~-----~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT-N~~~~Ld---~AllRpGRf  327 (431)
                      ....  ...+++....+.     ++     ........|++.++.....  +..++|.|+ +.|..++   |.|.++.+.
T Consensus        77 ~~~~--~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~--~~~illits~~~p~~l~~~~~~L~sRl~~  152 (229)
T PRK06893         77 KSQY--FSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQ--GKTLLLISADCSPHALSIKLPDLASRLTW  152 (229)
T ss_pred             Hhhh--hhHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHc--CCcEEEEeCCCChHHccccchhHHHHHhc
Confidence            2110  111222111111     11     1111222455555544322  224555554 4566554   899986666


Q ss_pred             eEEEEcCCCCHHHHHHHHHHhhc
Q 035603          328 DKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       328 d~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ...+.++.|+.+.+..+++....
T Consensus       153 g~~~~l~~pd~e~~~~iL~~~a~  175 (229)
T PRK06893        153 GEIYQLNDLTDEQKIIVLQRNAY  175 (229)
T ss_pred             CCeeeCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999887653

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.16  E-value=2.4e-09  Score=108.47  Aligned_cols=144  Identities=18%  Similarity=0.226  Sum_probs=102.2

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD------------  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------  254 (431)
                      .+|+++++|+|.+++++.|.+.+..           | ..+.++||+||+|+||+++|.++|+.+-+.            
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~-----------~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~   80 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRS-----------G-RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPP   80 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCcccccc
Confidence            5899999999999999888754432           1 235689999999999999999999977431            


Q ss_pred             ----------------------eEEeccc--CcC-------ChHHHHHHHHHhhhc--------------ccchhhHHHH
Q 035603          255 ----------------------VYDLELT--SVE-------NNNELRSLLVDISSK--------------KKKSNVTLSG  289 (431)
Q Consensus       255 ----------------------i~~l~~~--~~~-------~~~~l~~l~~~~~~~--------------~~~~~~~~s~  289 (431)
                                            ++.+...  +-.       ..++++++.......              +..+....+.
T Consensus        81 ~~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aana  160 (365)
T PRK07471         81 TSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANA  160 (365)
T ss_pred             ccccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHH
Confidence                                  2222210  100       124455554433221              3345567788


Q ss_pred             HHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          290 LLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       290 lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ||..+...    ....++|++|+.++.+.|.+++  |. ..|.|+.|+.++..+++....
T Consensus       161 LLK~LEep----p~~~~~IL~t~~~~~llpti~S--Rc-~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        161 LLKVLEEP----PARSLFLLVSHAPARLLPTIRS--RC-RKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             HHHHHhcC----CCCeEEEEEECCchhchHHhhc--cc-eEEECCCCCHHHHHHHHHHhc
Confidence            99888843    3457888999999999999887  54 689999999998888887754

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.16  E-value=2.9e-10  Score=107.14  Aligned_cols=148  Identities=16%  Similarity=0.176  Sum_probs=85.7

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      ...+.+|++.+..  ..+.+.+.+..+..         ...++.++|+||||||||++++++++++   +.+++.+++..
T Consensus         8 ~~~~~~~~~~~~~--~~~~~~~~l~~~~~---------~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~   76 (226)
T TIGR03420         8 LPDDPTFDNFYAG--GNAELLAALRQLAA---------GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAE   76 (226)
T ss_pred             CCCchhhcCcCcC--CcHHHHHHHHHHHh---------cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHH
Confidence            3445778888732  22333444444432         1235789999999999999999999876   46777777766


Q ss_pred             cCChHHHHHHHHHhhhc-----ccc---hh--hHHHHHHHHhcCcccCCCCceEEEEecC-CCCCCC---hhhhccCcee
Q 035603          263 VENNNELRSLLVDISSK-----KKK---SN--VTLSGLLNCIGGLWSTCGGERIIVFTTN-HVDKLD---PALIRRGRMD  328 (431)
Q Consensus       263 ~~~~~~l~~l~~~~~~~-----~~~---~~--~~~s~lL~~ldg~~~~~~~~~ivI~TTN-~~~~Ld---~AllRpGRfd  328 (431)
                      +...  ...++......     +..   ..  .....|...++..... +  ..+|+|+| .+..++   +.|.++..+.
T Consensus        77 ~~~~--~~~~~~~~~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~-~--~~iIits~~~~~~~~~~~~~L~~r~~~~  151 (226)
T TIGR03420        77 LAQA--DPEVLEGLEQADLVCLDDVEAIAGQPEWQEALFHLYNRVREA-G--GRLLIAGRAAPAQLPLRLPDLRTRLAWG  151 (226)
T ss_pred             HHHh--HHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHc-C--CeEEEECCCChHHCCcccHHHHHHHhcC
Confidence            5321  12222211111     111   11  1134455555543222 1  23444554 444432   7888722235


Q ss_pred             EEEEcCCCCHHHHHHHHHHhh
Q 035603          329 KHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       329 ~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      .+|.+|.|+.+++..+++.+.
T Consensus       152 ~~i~l~~l~~~e~~~~l~~~~  172 (226)
T TIGR03420       152 LVFQLPPLSDEEKIAALQSRA  172 (226)
T ss_pred             eeEecCCCCHHHHHHHHHHHH
Confidence            889999999999998887664

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.

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

Probab=99.14  E-value=1e-09  Score=112.73  Aligned_cols=72  Identities=19%  Similarity=0.245  Sum_probs=52.9

Q ss_pred             cc-ccccChhhHHHHHHHHHHHHhCHHHHHH--hCCC-CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          192 FD-TLAMASKKKEAIKKDLIKFTEGKEYYAK--IGKA-WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       192 f~-~l~g~~~~k~~i~~~l~~~~~~~~~~~~--~g~~-~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ++ .|+|++++|+.+...+......-.....  -+++ ...++||+||||||||++|+++|..++.+++.++++.+
T Consensus        69 L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l  144 (412)
T PRK05342         69 LDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTL  144 (412)
T ss_pred             HhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            54 3899999999987666544332110000  0112 35689999999999999999999999999999998765

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.14  E-value=1.1e-09  Score=109.46  Aligned_cols=64  Identities=22%  Similarity=0.353  Sum_probs=51.3

Q ss_pred             CCcc-ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------CeEEecc
Q 035603          190 ATFD-TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------DVYDLEL  260 (431)
Q Consensus       190 ~~f~-~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------~i~~l~~  260 (431)
                      .-|+ ++.|.++.+++|.+.+.....+      . -..++.++|+|||||||||||++||+.++.       ++|.+..
T Consensus        47 ~~F~~~~~G~~~~i~~lv~~l~~~a~g------~-~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       47 RFFDHDFFGMEEAIERFVNYFKSAAQG------L-EERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cccchhccCcHHHHHHHHHHHHHHHhc------C-CCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            3477 8999999999888776655431      1 234578899999999999999999999987       8888866

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

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.13  E-value=1.2e-09  Score=103.49  Aligned_cols=145  Identities=16%  Similarity=0.169  Sum_probs=85.0

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +...|.+|+++.+..+  +.+...+..+..        +....++++|+||||||||+|++++++++   +..++.+++.
T Consensus        10 ~~~~~~~~d~f~~~~~--~~~~~~l~~~~~--------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~   79 (227)
T PRK08903         10 GPPPPPTFDNFVAGEN--AELVARLRELAA--------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA   79 (227)
T ss_pred             CCCChhhhcccccCCc--HHHHHHHHHHHh--------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence            4456688999773321  223333333322        23445789999999999999999999875   5567777765


Q ss_pred             CcCChHHHHHHHHHhhh-c-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC---CCChhhhccCce--e
Q 035603          262 SVENNNELRSLLVDISS-K-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD---KLDPALIRRGRM--D  328 (431)
Q Consensus       262 ~~~~~~~l~~l~~~~~~-~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~---~Ld~AllRpGRf--d  328 (431)
                      .....      +..... .       +.........|+..++.....  +..++|+|++.+.   .+.+.|..  |+  .
T Consensus        80 ~~~~~------~~~~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~--~~~~vl~~~~~~~~~~~l~~~L~s--r~~~~  149 (227)
T PRK08903         80 SPLLA------FDFDPEAELYAVDDVERLDDAQQIALFNLFNRVRAH--GQGALLVAGPAAPLALPLREDLRT--RLGWG  149 (227)
T ss_pred             HhHHH------HhhcccCCEEEEeChhhcCchHHHHHHHHHHHHHHc--CCcEEEEeCCCCHHhCCCCHHHHH--HHhcC
Confidence            53211      111111 0       111122334455555544322  2245666665432   35677876  55  5


Q ss_pred             EEEEcCCCCHHHHHHHHHHhh
Q 035603          329 KHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       329 ~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ..|++|.|+.+.+..++..+.
T Consensus       150 ~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903        150 LVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             eEEEecCCCHHHHHHHHHHHH
Confidence            799999999888777766543

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

Probab=99.12  E-value=2e-09  Score=107.80  Aligned_cols=122  Identities=20%  Similarity=0.189  Sum_probs=86.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhh----hc----------------------c
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDIS----SK----------------------K  280 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~----~~----------------------~  280 (431)
                      .+.+||-||||||||++|+++|..++.+++.+.++.-....++.....-..    ..                      +
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            468999999999999999999999999999999986544433322111111    11                      3


Q ss_pred             cchhhHHHHHHHHhcCc-------c-cCCCCceEEEEecC-----CCCCCChhhhccCceeEEEEcCCC-CHHHHHHHHH
Q 035603          281 KKSNVTLSGLLNCIGGL-------W-STCGGERIIVFTTN-----HVDKLDPALIRRGRMDKHIEMPYC-CFEAFKVLAK  346 (431)
Q Consensus       281 ~~~~~~~s~lL~~ldg~-------~-~~~~~~~ivI~TTN-----~~~~Ld~AllRpGRfd~~I~~~~p-~~~~r~~i~~  346 (431)
                      .....+.+.||..|+.-       . -.-....++|+|+|     ....|++|+++  ||-..++++|| ..++...+..
T Consensus       123 ra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~ld--Rf~~~~~v~yp~~~~e~~~i~~  200 (329)
T COG0714         123 RAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILA  200 (329)
T ss_pred             cCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHHh--hEEEEEecCCCCchHHHHHHHH
Confidence            34567888888888751       1 11224478888989     55678999999  99999999999 5555555555


Q ss_pred             Hhhc
Q 035603          347 NYLE  350 (431)
Q Consensus       347 ~~l~  350 (431)
                      ....
T Consensus       201 ~~~~  204 (329)
T COG0714         201 RVGG  204 (329)
T ss_pred             hCcc
Confidence            5443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.12  E-value=6.6e-09  Score=104.73  Aligned_cols=143  Identities=15%  Similarity=0.200  Sum_probs=98.7

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-------e----
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-------V----  255 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-------i----  255 (431)
                      .||+.|+.|+|.+++++.+...+.    .       | ..+..+||+||+|+|||++|+++|+.+.+.       .    
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~----~-------g-rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~   84 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYR----E-------G-KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLAD   84 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHH----c-------C-CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCC
Confidence            589999999999999888765432    1       1 234589999999999999999999988651       1    


Q ss_pred             -------------------EEeccc-CcC--------ChHHHHHHHHHhhh---c-----------ccchhhHHHHHHHH
Q 035603          256 -------------------YDLELT-SVE--------NNNELRSLLVDISS---K-----------KKKSNVTLSGLLNC  293 (431)
Q Consensus       256 -------------------~~l~~~-~~~--------~~~~l~~l~~~~~~---~-----------~~~~~~~~s~lL~~  293 (431)
                                         +.+... +..        ..+.++.+......   .           +.-.....+.||..
T Consensus        85 ~~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~  164 (351)
T PRK09112         85 PDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKT  164 (351)
T ss_pred             CCCCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHH
Confidence                               111100 000        12344443322111   1           33345567889999


Q ss_pred             hcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          294 IGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       294 ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      ++..    ....++|+.|+.++.|.|.++.  |. .++.+++|+.++...++...
T Consensus       165 LEEp----p~~~~fiLit~~~~~llptIrS--Rc-~~i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        165 LEEP----PARALFILISHSSGRLLPTIRS--RC-QPISLKPLDDDELKKALSHL  212 (351)
T ss_pred             HhcC----CCCceEEEEECChhhccHHHHh--hc-cEEEecCCCHHHHHHHHHHh
Confidence            8753    3447777778889999999987  66 59999999999988888773

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.12  E-value=1.7e-09  Score=120.67  Aligned_cols=142  Identities=19%  Similarity=0.280  Sum_probs=97.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|..++.++|.++..+.+++.+    ..         ..+..++|+||||||||++++++|..+          +++++.
T Consensus       173 r~~~l~~vigr~~ei~~~i~iL----~r---------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~  239 (857)
T PRK10865        173 EQGKLDPVIGRDEEIRRTIQVL----QR---------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA  239 (857)
T ss_pred             hcCCCCcCCCCHHHHHHHHHHH----hc---------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEE
Confidence            3667899999887655544432    11         124578999999999999999999987          788888


Q ss_pred             ecccCcCC--------hHHHHHHHHHhhhc--------c----------cchhhHHHHHHHHhcCcccCCCCceEEEEec
Q 035603          258 LELTSVEN--------NNELRSLLVDISSK--------K----------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTT  311 (431)
Q Consensus       258 l~~~~~~~--------~~~l~~l~~~~~~~--------~----------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT  311 (431)
                      ++++.+..        ...++++|......        +          .........+|.   ..-  ..+.+.+|+||
T Consensus       240 l~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lk---p~l--~~g~l~~IgaT  314 (857)
T PRK10865        240 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLK---PAL--ARGELHCVGAT  314 (857)
T ss_pred             EehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhc---chh--hcCCCeEEEcC
Confidence            88776521        23577777654321        0          011111222222   221  23468999999


Q ss_pred             CCCC-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          312 NHVD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       312 N~~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +..+     .+|+||.|  ||+ .|.++.|+.+++..|++....
T Consensus       315 t~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~  355 (857)
T PRK10865        315 TLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKE  355 (857)
T ss_pred             CCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhh
Confidence            9877     48999999  997 588999999999998876543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.11  E-value=1.3e-09  Score=121.37  Aligned_cols=140  Identities=18%  Similarity=0.246  Sum_probs=95.0

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|.+++.++|.++....+++.+   ..          ..+.+.+|+||||||||++++.+|..+          +..++.
T Consensus       182 r~~~ld~~iGr~~ei~~~i~~l---~r----------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~  248 (852)
T TIGR03345       182 REGKIDPVLGRDDEIRQMIDIL---LR----------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLS  248 (852)
T ss_pred             cCCCCCcccCCHHHHHHHHHHH---hc----------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEE
Confidence            4678999999887655544322   11          224588999999999999999999976          356777


Q ss_pred             ecccCcCC--------hHHHHHHHHHhhhc---------------c-c---chhhHHHHHHHHhcCcccCCCCceEEEEe
Q 035603          258 LELTSVEN--------NNELRSLLVDISSK---------------K-K---KSNVTLSGLLNCIGGLWSTCGGERIIVFT  310 (431)
Q Consensus       258 l~~~~~~~--------~~~l~~l~~~~~~~---------------~-~---~~~~~~s~lL~~ldg~~~~~~~~~ivI~T  310 (431)
                      ++++.+..        ...+++++.+....               . +   .....-+-|+..+.      .+.+.+|+|
T Consensus       249 l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~------~G~l~~Iga  322 (852)
T TIGR03345       249 LDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA------RGELRTIAA  322 (852)
T ss_pred             eehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh------CCCeEEEEe
Confidence            77765421        24677788766432               0 0   11111112333322      345889998


Q ss_pred             cCCCC-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          311 TNHVD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       311 TN~~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      |+..+     .+||||.|  ||. .|.++.|+.++...|++.+.
T Consensus       323 TT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       323 TTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             cCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHH
Confidence            88643     48999999  995 79999999999999965544

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.11  E-value=1.4e-09  Score=108.66  Aligned_cols=147  Identities=22%  Similarity=0.207  Sum_probs=94.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-------CCCeEE--e
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-------NYDVYD--L  258 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-------~~~i~~--l  258 (431)
                      .|.+|++|+|.+++++.+.-.+..             +-..++||+||||||||++++++|+-+       ++++-.  +
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~   69 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARP   69 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcc
Confidence            467899999999998877532211             112479999999999999999999998       332111  0


Q ss_pred             c----cc-----C-------------------cCChHHHHHHHHHhh------------hc-------ccchhhHHHHHH
Q 035603          259 E----LT-----S-------------------VENNNELRSLLVDIS------------SK-------KKKSNVTLSGLL  291 (431)
Q Consensus       259 ~----~~-----~-------------------~~~~~~l~~l~~~~~------------~~-------~~~~~~~~s~lL  291 (431)
                      .    ..     .                   +-+.-.+...+....            ..       +.....+.+.|+
T Consensus        70 ~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Ll  149 (334)
T PRK13407         70 EDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLL  149 (334)
T ss_pred             cCCcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCHHHHHHHH
Confidence            0    00     0                   000001111110000            00       234566778888


Q ss_pred             HHhcCc---------ccCCCCceEEEEecCCCC-CCChhhhccCceeEEEEcCCCCH-HHHHHHHHHhh
Q 035603          292 NCIGGL---------WSTCGGERIIVFTTNHVD-KLDPALIRRGRMDKHIEMPYCCF-EAFKVLAKNYL  349 (431)
Q Consensus       292 ~~ldg~---------~~~~~~~~ivI~TTN~~~-~Ld~AllRpGRfd~~I~~~~p~~-~~r~~i~~~~l  349 (431)
                      +.|+.-         .......+++|+|+|..+ .++++|+.  ||...|.+++|.. +++.++++...
T Consensus       150 e~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~il~~~~  216 (334)
T PRK13407        150 DVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEVIRRRD  216 (334)
T ss_pred             HHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHhh
Confidence            888532         111234578889999655 69999999  9999999999976 88888888754

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.10  E-value=1.2e-09  Score=112.41  Aligned_cols=182  Identities=17%  Similarity=0.221  Sum_probs=103.4

Q ss_pred             eccCCCCccc-cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEe
Q 035603          185 YFEHPATFDT-LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDL  258 (431)
Q Consensus       185 ~~~~p~~f~~-l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l  258 (431)
                      .+.+..+|++ ++|....  .....+..+...+      |. ...+++||||||||||+|++|+|+++     +..++.+
T Consensus       102 ~l~~~~tfd~fi~g~~n~--~a~~~~~~~~~~~------~~-~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi  172 (405)
T TIGR00362       102 PLNPKYTFDNFVVGKSNR--LAHAAALAVAENP------GK-AYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYV  172 (405)
T ss_pred             CCCCCCcccccccCCcHH--HHHHHHHHHHhCc------Cc-cCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEE
Confidence            3555678999 4554332  1233344333321      21 23579999999999999999999987     5677777


Q ss_pred             cccCcCCh-------HHHHHHHHHhhhc-----cc-----chhhHHHHHHHHhcCcccCCCCceEEEEecCCCC---CCC
Q 035603          259 ELTSVENN-------NELRSLLVDISSK-----KK-----KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD---KLD  318 (431)
Q Consensus       259 ~~~~~~~~-------~~l~~l~~~~~~~-----~~-----~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~---~Ld  318 (431)
                      ++.++...       ..+..+.......     ++     ....+...|+..++.+...  +..+||.++..|.   .++
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~--~~~iiits~~~p~~l~~l~  250 (405)
T TIGR00362       173 SSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKERTQEEFFHTFNALHEN--GKQIVLTSDRPPKELPGLE  250 (405)
T ss_pred             EHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHC--CCCEEEecCCCHHHHhhhh
Confidence            76543110       0000111100001     11     1112334566666655332  2245554444554   366


Q ss_pred             hhhhccCcee--EEEEcCCCCHHHHHHHHHHhhchhcchhHH-HHHhHhccCCCCHHHHHHHhc
Q 035603          319 PALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLEIESHELFH-EIGSLLGETDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~-~i~~l~~~~~~s~adI~~~l~  379 (431)
                      +.+..  ||.  ..++++.|+.++|..|++.........+.+ .+.-++....=+..++.+.+.
T Consensus       251 ~~l~S--Rl~~g~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~  312 (405)
T TIGR00362       251 ERLRS--RFEWGLVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALN  312 (405)
T ss_pred             hhhhh--hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHH
Confidence            88887  885  589999999999999999987654333323 334445544555566555443

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).

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.09  E-value=5.6e-10  Score=110.38  Aligned_cols=122  Identities=18%  Similarity=0.170  Sum_probs=84.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHH------------------HHHHhhhc--------
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRS------------------LLVDISSK--------  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~------------------l~~~~~~~--------  279 (431)
                      .++.+||.||||||||++++.+|..++++++.++++......++-.                  .+..+...        
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDE  142 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDE  142 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEech
Confidence            3578999999999999999999999999999998765422211110                  11111111        


Q ss_pred             -ccchhhHHHHHHHHhcC---ccc-------CCCCceEEEEecCCCC------------CCChhhhccCceeEEEEcCCC
Q 035603          280 -KKKSNVTLSGLLNCIGG---LWS-------TCGGERIIVFTTNHVD------------KLDPALIRRGRMDKHIEMPYC  336 (431)
Q Consensus       280 -~~~~~~~~s~lL~~ldg---~~~-------~~~~~~ivI~TTN~~~------------~Ld~AllRpGRfd~~I~~~~p  336 (431)
                       +.....+.+.|...||.   +.-       .+.....+|+|+|..+            .|++|++.  ||-+.+.++||
T Consensus       143 in~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lD--RF~i~~~~~Yp  220 (327)
T TIGR01650       143 YDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMD--RWSIVTTLNYL  220 (327)
T ss_pred             hhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHh--heeeEeeCCCC
Confidence             23344566666666552   100       1223467999999865            46899999  99999999999


Q ss_pred             CHHHHHHHHHHhh
Q 035603          337 CFEAFKVLAKNYL  349 (431)
Q Consensus       337 ~~~~r~~i~~~~l  349 (431)
                      +.+.-..|+....
T Consensus       221 ~~e~E~~Il~~~~  233 (327)
T TIGR01650       221 EHDNEAAIVLAKA  233 (327)
T ss_pred             CHHHHHHHHHhhc
Confidence            9998888877653

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

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

Probab=99.08  E-value=2.6e-09  Score=109.28  Aligned_cols=154  Identities=22%  Similarity=0.212  Sum_probs=96.9

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHH----HHhCCCC-CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC---
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYY----AKIGKAW-KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN---  265 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~----~~~g~~~-~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~---  265 (431)
                      .|+|+++.++.+...+......-...    ..-+++. +..+||+||||||||++|+++|..++.++..++++.+..   
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            36999999998876664333221000    0001111 357999999999999999999999999999888766421   


Q ss_pred             -----hHHHHHHHHHhhh-------c-------ccc--------------hhhHHHHHHHHhcCcccC---------CCC
Q 035603          266 -----NNELRSLLVDISS-------K-------KKK--------------SNVTLSGLLNCIGGLWST---------CGG  303 (431)
Q Consensus       266 -----~~~l~~l~~~~~~-------~-------~~~--------------~~~~~s~lL~~ldg~~~~---------~~~  303 (431)
                           ...+..++.....       .       +..              ...+.+.||+.|+|....         +..
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~  237 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQ  237 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCC
Confidence                 1123333221110       0       000              114678899999886421         113


Q ss_pred             ceEEEEecCCCC--------------------------------------------------CCChhhhccCceeEEEEc
Q 035603          304 ERIIVFTTNHVD--------------------------------------------------KLDPALIRRGRMDKHIEM  333 (431)
Q Consensus       304 ~~ivI~TTN~~~--------------------------------------------------~Ld~AllRpGRfd~~I~~  333 (431)
                      +.++|+|+|-..                                                  .+.|+|+  ||+|..+.|
T Consensus       238 ~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEfl--gRld~Iv~f  315 (413)
T TIGR00382       238 EFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFI--GRLPVIATL  315 (413)
T ss_pred             CeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHh--CCCCeEeec
Confidence            468999988610                                                  0234454  499999999


Q ss_pred             CCCCHHHHHHHHHHhh
Q 035603          334 PYCCFEAFKVLAKNYL  349 (431)
Q Consensus       334 ~~p~~~~r~~i~~~~l  349 (431)
                      .+.+.+....|+...+
T Consensus       316 ~pL~~~~L~~Il~~~~  331 (413)
T TIGR00382       316 EKLDEEALIAILTKPK  331 (413)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            8889888888876543

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.07  E-value=5e-09  Score=106.03  Aligned_cols=147  Identities=16%  Similarity=0.198  Sum_probs=94.4

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccC
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTS  262 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~  262 (431)
                      .+.+.|-++..+.|...+...+.+         ..+..++++||||||||++++++++++.         +.++.+++..
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~---------~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~   84 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRG---------SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI   84 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC
Confidence            357888888888887777655432         2245799999999999999999998763         4677788766


Q ss_pred             cCChHH-HHHHHHHhh-------------------------hc--------ccc------hhhHHHHHHHHhcCcccCCC
Q 035603          263 VENNNE-LRSLLVDIS-------------------------SK--------KKK------SNVTLSGLLNCIGGLWSTCG  302 (431)
Q Consensus       263 ~~~~~~-l~~l~~~~~-------------------------~~--------~~~------~~~~~s~lL~~ldg~~~~~~  302 (431)
                      ..+... +..+.....                         ..        ++.      ....+..|+...+- ...++
T Consensus        85 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~-~~~~~  163 (365)
T TIGR02928        85 LDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSN-GDLDN  163 (365)
T ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccc-cCCCC
Confidence            543222 222222110                         00        111      11122223222110 11122


Q ss_pred             CceEEEEecCCCC---CCChhhhccCcee-EEEEcCCCCHHHHHHHHHHhhc
Q 035603          303 GERIIVFTTNHVD---KLDPALIRRGRMD-KHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       303 ~~~ivI~TTN~~~---~Ld~AllRpGRfd-~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ..+.+|++||.++   .+++.+.+  ||. ..|+|++++.++..++++..+.
T Consensus       164 ~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       164 AKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             CeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            4588899999885   68888887  664 6799999999999999998875

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.07  E-value=3.4e-09  Score=118.30  Aligned_cols=199  Identities=16%  Similarity=0.228  Sum_probs=120.5

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHH
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNE  268 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~  268 (431)
                      ++.|+|.+...+.|.+.+......-.   ..+.| ...+||+||||||||++|++||..+   +.+++.++++.+.....
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~---~~~~p-~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~  642 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLS---DPNRP-IGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHS  642 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhccc---CCCCC-CceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhh
Confidence            45688999988888887765432100   00111 1258999999999999999999987   34688888877643333


Q ss_pred             HHHHHH---------------Hhhhc-----------ccchhhHHHHHHHHhcCcc-cC-C-----CCceEEEEecCCC-
Q 035603          269 LRSLLV---------------DISSK-----------KKKSNVTLSGLLNCIGGLW-ST-C-----GGERIIVFTTNHV-  314 (431)
Q Consensus       269 l~~l~~---------------~~~~~-----------~~~~~~~~s~lL~~ldg~~-~~-~-----~~~~ivI~TTN~~-  314 (431)
                      +..++.               .....           ...+....+.|++.+|.-. .. .     -.+.+||+|||.. 
T Consensus       643 ~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~  722 (857)
T PRK10865        643 VSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGS  722 (857)
T ss_pred             HHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcch
Confidence            333331               11111           3335567788888886321 11 0     1236899999972 


Q ss_pred             ------------------------CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCC
Q 035603          315 ------------------------DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDIT  370 (431)
Q Consensus       315 ------------------------~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s  370 (431)
                                              ..+.|+|+.  |+|..|.|.+++.+....|++.++...    ...+...--...++
T Consensus       723 ~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~PL~~edl~~Iv~~~L~~l----~~rl~~~gi~l~is  796 (857)
T PRK10865        723 DLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHPLGEQHIASIAQIQLQRL----YKRLEERGYEIHIS  796 (857)
T ss_pred             HHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEecCCCCHHHHHHHHHHHHHHH----HHHHHhCCCcCcCC
Confidence                                    235678888  999999999999999999999887532    11121110112456


Q ss_pred             HHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHH
Q 035603          371 PADVAENLMPKSDEDDAGTCLKNLIEALKAAKE  403 (431)
Q Consensus       371 ~adI~~~l~~~~~~~~~~~~l~~l~~~l~~~~~  403 (431)
                      ++-+. .+..  ...++....+.+.+.+++...
T Consensus       797 ~~al~-~L~~--~gy~~~~GARpL~r~I~~~i~  826 (857)
T PRK10865        797 DEALK-LLSE--NGYDPVYGARPLKRAIQQQIE  826 (857)
T ss_pred             HHHHH-HHHH--cCCCccCChHHHHHHHHHHHH
Confidence            65554 4443  233444444444444444433

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.07  E-value=3e-09  Score=97.83  Aligned_cols=116  Identities=22%  Similarity=0.303  Sum_probs=82.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCC------------------------eEEecccCc-CChHHHHHHHHHhhhc-
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYD------------------------VYDLELTSV-ENNNELRSLLVDISSK-  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~------------------------i~~l~~~~~-~~~~~l~~l~~~~~~~-  279 (431)
                      .+..||||||||+|||++++++|+.+...                        +..++...- -..+.++.+....... 
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~   92 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTP   92 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCc
Confidence            45689999999999999999999987542                        333332211 1235666655444332 


Q ss_pred             -------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHH
Q 035603          280 -------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAK  346 (431)
Q Consensus       280 -------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~  346 (431)
                                   +.-.....+.||..|+..    +...++|++||.+..|++++.+  |. ..+++++|+.++...++.
T Consensus        93 ~~~~~kviiide~~~l~~~~~~~Ll~~le~~----~~~~~~il~~~~~~~l~~~i~s--r~-~~~~~~~~~~~~~~~~l~  165 (188)
T TIGR00678        93 QESGRRVVIIEDAERMNEAAANALLKTLEEP----PPNTLFILITPSPEKLLPTIRS--RC-QVLPFPPLSEEALLQWLI  165 (188)
T ss_pred             ccCCeEEEEEechhhhCHHHHHHHHHHhcCC----CCCeEEEEEECChHhChHHHHh--hc-EEeeCCCCCHHHHHHHHH
Confidence                         222344577789888753    3447788888888999999998  55 489999999999887776


Q ss_pred             Hh
Q 035603          347 NY  348 (431)
Q Consensus       347 ~~  348 (431)
                      ..
T Consensus       166 ~~  167 (188)
T TIGR00678       166 RQ  167 (188)
T ss_pred             Hc
Confidence            65

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.

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

Probab=99.06  E-value=6.4e-09  Score=109.89  Aligned_cols=156  Identities=21%  Similarity=0.265  Sum_probs=109.2

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHh---C--------------HHHH----HHhCCCCCceeEEeCCCC
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTE---G--------------KEYY----AKIGKAWKRGYLLFGPPG  237 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~---~--------------~~~~----~~~g~~~~rg~LL~GPPG  237 (431)
                      ..|.  .--.|..|.+|.+++.+-..++.+++.|=-   +              ++.+    ...+.|..+-+||+||||
T Consensus       259 kLWV--dky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppG  336 (877)
T KOG1969|consen  259 KLWV--DKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPG  336 (877)
T ss_pred             ceee--cccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCC
Confidence            4785  667899999999999999999988876521   0              0111    112456678899999999


Q ss_pred             CcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc------------------ccchhhHHHHHHHHhc--Cc
Q 035603          238 TGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK------------------KKKSNVTLSGLLNCIG--GL  297 (431)
Q Consensus       238 tGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~------------------~~~~~~~~s~lL~~ld--g~  297 (431)
                      -||||||+.||+..||.++++|.++-.+...+.+.+..+...                  ++.....+..+|..+.  +.
T Consensus       337 lGKTTLAHViAkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~~~Vdvilslv~a~~k  416 (877)
T KOG1969|consen  337 LGKTTLAHVIAKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPRAAVDVILSLVKATNK  416 (877)
T ss_pred             CChhHHHHHHHHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcHHHHHHHHHHHHhhcc
Confidence            999999999999999999999999988877777665554433                  3333444555555543  11


Q ss_pred             ccCCC---------------CceEEEEecCCCCCCChhhh--ccCceeEEEEcCCCCHHH
Q 035603          298 WSTCG---------------GERIIVFTTNHVDKLDPALI--RRGRMDKHIEMPYCCFEA  340 (431)
Q Consensus       298 ~~~~~---------------~~~ivI~TTN~~~~Ld~All--RpGRfd~~I~~~~p~~~~  340 (431)
                      .....               --+-||+.+|.  ..-|||.  |  -+-..|.|..|...-
T Consensus       417 ~~~Gkq~~~~~~rkkkr~~~L~RPIICICNd--LYaPaLR~Lr--~~A~ii~f~~p~~s~  472 (877)
T KOG1969|consen  417 QATGKQAKKDKKRKKKRSKLLTRPIICICND--LYAPALRPLR--PFAEIIAFVPPSQSR  472 (877)
T ss_pred             hhhcCcccchhhhhhhccccccCCEEEEecC--ccchhhhhcc--cceEEEEecCCChhH
Confidence            11000               02468999996  4567874  5  477788888887654

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.05  E-value=2.1e-09  Score=112.14  Aligned_cols=183  Identities=17%  Similarity=0.247  Sum_probs=104.2

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~  259 (431)
                      .+.+..+|++.+..+.-+. ....+..+...+      |.. .++++||||||||||+|++|+|+++     +..++.++
T Consensus       114 ~l~~~~tfd~fv~g~~n~~-a~~~~~~~~~~~------~~~-~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~  185 (450)
T PRK00149        114 PLNPKYTFDNFVVGKSNRL-AHAAALAVAENP------GKA-YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT  185 (450)
T ss_pred             CCCCCCcccccccCCCcHH-HHHHHHHHHhCc------Ccc-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence            4556678999543333222 233343333322      222 2579999999999999999999987     55677776


Q ss_pred             ccCcCCh--HH-----HHHHHHHhhhc-----cc-----chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CCh
Q 035603          260 LTSVENN--NE-----LRSLLVDISSK-----KK-----KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LDP  319 (431)
Q Consensus       260 ~~~~~~~--~~-----l~~l~~~~~~~-----~~-----~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld~  319 (431)
                      +.++...  ..     ...+.......     +.     ....+...|+..++.+...  +..+||.++..|..   +++
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~--~~~iiits~~~p~~l~~l~~  263 (450)
T PRK00149        186 SEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEA--GKQIVLTSDRPPKELPGLEE  263 (450)
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHC--CCcEEEECCCCHHHHHHHHH
Confidence            6553110  00     11111110011     11     1122345566666655432  22455555555544   778


Q ss_pred             hhhccCcee--EEEEcCCCCHHHHHHHHHHhhchhcchhHH-HHHhHhccCCCCHHHHHHHhc
Q 035603          320 ALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLEIESHELFH-EIGSLLGETDITPADVAENLM  379 (431)
Q Consensus       320 AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~-~i~~l~~~~~~s~adI~~~l~  379 (431)
                      .|..  ||.  ..+++..|+.+.|..|++.........+.+ .+.-++...+=+..++.+.+.
T Consensus       264 ~l~S--Rl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~R~l~~~l~  324 (450)
T PRK00149        264 RLRS--RFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNVRELEGALN  324 (450)
T ss_pred             HHHh--HhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCHHHHHHHHH
Confidence            9888  885  689999999999999999987643323322 344445444445555554443

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

Probab=99.05  E-value=6.3e-10  Score=121.93  Aligned_cols=137  Identities=23%  Similarity=0.312  Sum_probs=90.7

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~~~  261 (431)
                      ++.++|-++..+.+.+.+..             ..+..+||+||||||||++++++|...          +..++.+++.
T Consensus       185 ~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~  251 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG  251 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHH
Confidence            56677776666665543321             124578999999999999999999864          5667777655


Q ss_pred             CcC--------ChHHHHHHHHHhhhc----------------cc--chhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          262 SVE--------NNNELRSLLVDISSK----------------KK--KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       262 ~~~--------~~~~l~~l~~~~~~~----------------~~--~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                      .+.        ....++.++......                ..  ......   .|.+..+-.  .+++.+|++||.++
T Consensus       252 ~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~---~nlLkp~L~--~g~i~vIgATt~~E  326 (758)
T PRK11034        252 SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDA---ANLIKPLLS--SGKIRVIGSTTYQE  326 (758)
T ss_pred             HHhcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHH---HHHHHHHHh--CCCeEEEecCChHH
Confidence            432        123456665544321                11  111222   233332222  34589999999765


Q ss_pred             -----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          316 -----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       316 -----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                           .+||||.|  ||+ .|+++.|+.+++..|++.+.
T Consensus       327 ~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        327 FSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence                 58999999  996 79999999999999988654

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

Probab=99.05  E-value=2.1e-09  Score=105.54  Aligned_cols=145  Identities=21%  Similarity=0.264  Sum_probs=90.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC---eEEecccCc
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD---VYDLELTSV  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~---i~~l~~~~~  263 (431)
                      -.|.++++.+|++.+..+ ...+...+..       +  --.+++|+||||||||+||+.||+...-+   |+.++.+.-
T Consensus       132 mRPktL~dyvGQ~hlv~q-~gllrs~ieq-------~--~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a  201 (554)
T KOG2028|consen  132 MRPKTLDDYVGQSHLVGQ-DGLLRSLIEQ-------N--RIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNA  201 (554)
T ss_pred             cCcchHHHhcchhhhcCc-chHHHHHHHc-------C--CCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecccc
Confidence            368889999998877655 2333333321       1  11379999999999999999999987665   666666554


Q ss_pred             CChHHHHHHHHHhhhc------------ccchhhHHHHHHHHhcCcccCCCCceEEEEec--CCCCCCChhhhccCceeE
Q 035603          264 ENNNELRSLLVDISSK------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT--NHVDKLDPALIRRGRMDK  329 (431)
Q Consensus       264 ~~~~~l~~l~~~~~~~------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT--N~~~~Ld~AllRpGRfd~  329 (431)
                      . ..+++.+|.++.+.            ++..+-..++--.+|--+  .+ +.+++|++|  |..-.|..||+.++|+  
T Consensus       202 ~-t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD~fLP~V--E~-G~I~lIGATTENPSFqln~aLlSRC~V--  275 (554)
T KOG2028|consen  202 K-TNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTFLPHV--EN-GDITLIGATTENPSFQLNAALLSRCRV--  275 (554)
T ss_pred             c-hHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhhccccee--cc-CceEEEecccCCCccchhHHHHhccce--
Confidence            3 34699999887765            112222222222222222  12 236777654  4556899999996643  


Q ss_pred             EEEcCCCCHHHHHHHHHHh
Q 035603          330 HIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       330 ~I~~~~p~~~~r~~i~~~~  348 (431)
                       +-+...+.+....|+.+-
T Consensus       276 -fvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  276 -FVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             -eEeccCCHHHHHHHHHHH
Confidence             444555566666666553

>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=99.04  E-value=2.6e-10  Score=99.45  Aligned_cols=97  Identities=28%  Similarity=0.367  Sum_probs=66.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc-----------------------ccchhh
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK-----------------------KKKSNV  285 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~-----------------------~~~~~~  285 (431)
                      ++||+||||||||++++.+|..++.+++.+.++...+..++..........                       +.....
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~~~   80 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAPPE   80 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG--HH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCCHH
Confidence            489999999999999999999999999999988865555443221110110                       223456


Q ss_pred             HHHHHHHHhcCcccC----------CCC-----ceEEEEecCCCC----CCChhhhccCce
Q 035603          286 TLSGLLNCIGGLWST----------CGG-----ERIIVFTTNHVD----KLDPALIRRGRM  327 (431)
Q Consensus       286 ~~s~lL~~ldg~~~~----------~~~-----~~ivI~TTN~~~----~Ld~AllRpGRf  327 (431)
                      .+..|++.++.-.-.          ...     +..||+|+|..+    .+++||+|  ||
T Consensus        81 v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen   81 VLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLD--RF  139 (139)
T ss_dssp             HHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHT--T-
T ss_pred             HHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHh--hC
Confidence            677777777652111          111     379999999998    99999999  86

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.03  E-value=5.1e-09  Score=113.00  Aligned_cols=147  Identities=18%  Similarity=0.278  Sum_probs=94.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|.+|++++|.+...+.+.+.+.             .+.+..++|+||||||||++|+++++..          +.+++.
T Consensus       149 rp~~~~~iiGqs~~~~~l~~~ia-------------~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~  215 (615)
T TIGR02903       149 RPRAFSEIVGQERAIKALLAKVA-------------SPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVE  215 (615)
T ss_pred             CcCcHHhceeCcHHHHHHHHHHh-------------cCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEE
Confidence            48899999999988887654331             1335679999999999999999998765          346788


Q ss_pred             ecccCcCC-hHHHH-HHH---------------HH-------------hhhc-------ccchhhHHHHHHHHhcCcc--
Q 035603          258 LELTSVEN-NNELR-SLL---------------VD-------------ISSK-------KKKSNVTLSGLLNCIGGLW--  298 (431)
Q Consensus       258 l~~~~~~~-~~~l~-~l~---------------~~-------------~~~~-------~~~~~~~~s~lL~~ldg~~--  298 (431)
                      +++..+.. ...+. .++               ..             +...       +.-+......|+..++.-.  
T Consensus       216 i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~  295 (615)
T TIGR02903       216 VDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVE  295 (615)
T ss_pred             EechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEE
Confidence            88765521 11111 011               00             0000       1122334555666664210  


Q ss_pred             ----------------------cCCCCceEEEE-ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          299 ----------------------STCGGERIIVF-TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       299 ----------------------~~~~~~~ivI~-TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                            ......+++|+ ||+.++.++++|.+  |+. .+++++.+.++...|++.++.
T Consensus       296 ~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls~edi~~Il~~~a~  367 (615)
T TIGR02903       296 FSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEPLTPEDIALIVLNAAE  367 (615)
T ss_pred             eecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCCCCHHHHHHHHHHHHH
Confidence                                  00112245554 66778899999988  886 578888999999999998764

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.00  E-value=1.1e-08  Score=102.63  Aligned_cols=145  Identities=19%  Similarity=0.206  Sum_probs=95.2

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------CeEEeccc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------DVYDLELT  261 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------~i~~l~~~  261 (431)
                      .-+|.+|+|++++|..|...+..             |...|+||.||+|||||+++++++..+..       +|. .+..
T Consensus        13 ~~pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~~p~   78 (350)
T CHL00081         13 VFPFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-SHPS   78 (350)
T ss_pred             CCCHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-CCCC
Confidence            45899999999999988765432             22358999999999999999999887642       111 0000


Q ss_pred             -----------------------------Cc---CChHH------HHHHHHHhhh------------c-------ccchh
Q 035603          262 -----------------------------SV---ENNNE------LRSLLVDISS------------K-------KKKSN  284 (431)
Q Consensus       262 -----------------------------~~---~~~~~------l~~l~~~~~~------------~-------~~~~~  284 (431)
                                                   .+   .+.+.      +.+.+.....            .       +.-+.
T Consensus        79 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~  158 (350)
T CHL00081         79 DPELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDD  158 (350)
T ss_pred             ChhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCH
Confidence                                         00   01111      1222211110            0       23345


Q ss_pred             hHHHHHHHHhcC---------cccCCCCceEEEEecCCCC-CCChhhhccCceeEEEEcCCCC-HHHHHHHHHHhh
Q 035603          285 VTLSGLLNCIGG---------LWSTCGGERIIVFTTNHVD-KLDPALIRRGRMDKHIEMPYCC-FEAFKVLAKNYL  349 (431)
Q Consensus       285 ~~~s~lL~~ldg---------~~~~~~~~~ivI~TTN~~~-~Ld~AllRpGRfd~~I~~~~p~-~~~r~~i~~~~l  349 (431)
                      .+.+.||+.|+.         ........+++|+|.|..+ .++++|+.  ||.++|.+++|+ .+.+.+|++...
T Consensus       159 ~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~~~e~~il~~~~  232 (350)
T CHL00081        159 HLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDPELRVKIVEQRT  232 (350)
T ss_pred             HHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCChHHHHHHHHhhh
Confidence            667778888743         2212233567788888665 69999999  999999999998 589989988754

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

Probab=99.00  E-value=2.9e-09  Score=115.12  Aligned_cols=198  Identities=17%  Similarity=0.212  Sum_probs=133.8

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC---C-ceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW---K-RGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVEN  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~-rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~  265 (431)
                      ..|+|+++..+.|.+.+..-..        |+.-   | ..+||.||.|+|||-||+++|..|.   -.++.+|+|+...
T Consensus       491 ~rViGQd~AV~avs~aIrraRa--------GL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARA--------GLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhc--------CCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH
Confidence            4578999888888877765443        3222   1 3678899999999999999999997   7899999999987


Q ss_pred             hHHHHHHHHHhhhc--------------------------ccchhhHHHHHHHHhcCcccCCCC-------ceEEEEecC
Q 035603          266 NNELRSLLVDISSK--------------------------KKKSNVTLSGLLNCIGGLWSTCGG-------ERIIVFTTN  312 (431)
Q Consensus       266 ~~~l~~l~~~~~~~--------------------------~~~~~~~~s~lL~~ldg~~~~~~~-------~~ivI~TTN  312 (431)
                      ...+.+++...++.                          ...+...++-||+.||.-.-..+.       +.|||||||
T Consensus       563 kHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN  642 (786)
T COG0542         563 KHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSN  642 (786)
T ss_pred             HHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecc
Confidence            77788777654443                          345677899999999853333332       469999999


Q ss_pred             CC----------------------------CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHh
Q 035603          313 HV----------------------------DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLL  364 (431)
Q Consensus       313 ~~----------------------------~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~  364 (431)
                      --                            ....|+++.  |+|..|.|.+.+.+...+|+..++...    ...+.+--
T Consensus       643 ~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~II~F~~L~~~~l~~Iv~~~L~~l----~~~L~~~~  716 (786)
T COG0542         643 AGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN--RIDEIIPFNPLSKEVLERIVDLQLNRL----AKRLAERG  716 (786)
T ss_pred             cchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh--hcccEEeccCCCHHHHHHHHHHHHHHH----HHHHHhCC
Confidence            32                            013677887  999999999999999999999988532    22222100


Q ss_pred             ccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHh
Q 035603          365 GETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKK  407 (431)
Q Consensus       365 ~~~~~s~adI~~~l~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  407 (431)
                      -...+|++-. +.+..  ...++....+.+.+++++..+..-.
T Consensus       717 i~l~~s~~a~-~~l~~--~gyd~~~GARpL~R~Iq~~i~~~La  756 (786)
T COG0542         717 ITLELSDEAK-DFLAE--KGYDPEYGARPLRRAIQQEIEDPLA  756 (786)
T ss_pred             ceEEECHHHH-HHHHH--hccCCCcCchHHHHHHHHHHHHHHH
Confidence            0114555444 33333  2334555556666666655544333

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.99  E-value=2.5e-09  Score=102.08  Aligned_cols=150  Identities=13%  Similarity=0.098  Sum_probs=82.6

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccC
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTS  262 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~  262 (431)
                      ..+..+|++.+-..  -......+..+...         +..+.++||||||||||+|++++|+++.   ..+..++...
T Consensus        15 ~~~~~~fd~f~~~~--n~~a~~~l~~~~~~---------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~   83 (235)
T PRK08084         15 LPDDETFASFYPGD--NDSLLAALQNALRQ---------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK   83 (235)
T ss_pred             CCCcCCccccccCc--cHHHHHHHHHHHhC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence            34447898876332  12233444433321         1235899999999999999999998764   3344444433


Q ss_pred             cCC-hHHHHHHHHHh-------hhcccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CChhhhccCcee--E
Q 035603          263 VEN-NNELRSLLVDI-------SSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LDPALIRRGRMD--K  329 (431)
Q Consensus       263 ~~~-~~~l~~l~~~~-------~~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld~AllRpGRfd--~  329 (431)
                      ... ..++.+.+...       ...-......-..|.+.++..... +...+|+.+++.|..   +.|.|..  |+.  .
T Consensus        84 ~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~-g~~~li~ts~~~p~~l~~~~~~L~S--Rl~~g~  160 (235)
T PRK08084         84 RAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLYNRILES-GRTRLLITGDRPPRQLNLGLPDLAS--RLDWGQ  160 (235)
T ss_pred             HhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHc-CCCeEEEeCCCChHHcCcccHHHHH--HHhCCc
Confidence            211 11222221111       000111122222344444433221 222455555556655   6799998  775  8


Q ss_pred             EEEcCCCCHHHHHHHHHHhh
Q 035603          330 HIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       330 ~I~~~~p~~~~r~~i~~~~l  349 (431)
                      .+++..|+.+++.++++...
T Consensus       161 ~~~l~~~~~~~~~~~l~~~a  180 (235)
T PRK08084        161 IYKLQPLSDEEKLQALQLRA  180 (235)
T ss_pred             eeeecCCCHHHHHHHHHHHH
Confidence            89999999999999886643

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.99  E-value=2.3e-08  Score=99.91  Aligned_cols=116  Identities=20%  Similarity=0.323  Sum_probs=86.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEecccC---cCChHHHHHHHHHhhh
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELTS---VENNNELRSLLVDISS  278 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~~---~~~~~~l~~l~~~~~~  278 (431)
                      .+.+|||+||+|+|||++|+++|+.+.+                        +++.+....   .-..+.++++......
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~  100 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQ  100 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhh
Confidence            3568999999999999999999998865                        344443321   1134667776654433


Q ss_pred             c--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHH
Q 035603          279 K--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL  344 (431)
Q Consensus       279 ~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i  344 (431)
                      .              +.-.....+.||..|+.    ++++.++|++|++++.|.|.++.  |. ..+.|+.|+.++....
T Consensus       101 ~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEE----Pp~~~~fiL~t~~~~~ll~TI~S--Rc-~~~~~~~~~~~~~~~~  173 (328)
T PRK05707        101 TAQLGGRKVVLIEPAEAMNRNAANALLKSLEE----PSGDTVLLLISHQPSRLLPTIKS--RC-QQQACPLPSNEESLQW  173 (328)
T ss_pred             ccccCCCeEEEECChhhCCHHHHHHHHHHHhC----CCCCeEEEEEECChhhCcHHHHh--hc-eeeeCCCcCHHHHHHH
Confidence            2              33456678899999985    34568999999999999999998  55 4599999998887766


Q ss_pred             HHHh
Q 035603          345 AKNY  348 (431)
Q Consensus       345 ~~~~  348 (431)
                      +...
T Consensus       174 L~~~  177 (328)
T PRK05707        174 LQQA  177 (328)
T ss_pred             HHHh
Confidence            6654

>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=98.99  E-value=6.1e-09  Score=89.49  Aligned_cols=108  Identities=28%  Similarity=0.345  Sum_probs=72.7

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHHHHH--------H-hhh-c------ccch---
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLLV--------D-ISS-K------KKKS---  283 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~--------~-~~~-~------~~~~---  283 (431)
                      ..++++++||||||||++++.+++.+   +.+++.+++..............        . ... .      ++..   
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~~   97 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLS   97 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhhh
Confidence            35689999999999999999999998   88999988876643322221111        0 000 0      2222   


Q ss_pred             hhHHHHHHHHhcCcccC--CCCceEEEEecCCCC--CCChhhhccCceeEEEEcCC
Q 035603          284 NVTLSGLLNCIGGLWST--CGGERIIVFTTNHVD--KLDPALIRRGRMDKHIEMPY  335 (431)
Q Consensus       284 ~~~~s~lL~~ldg~~~~--~~~~~ivI~TTN~~~--~Ld~AllRpGRfd~~I~~~~  335 (431)
                      ......++..+......  ...+..+|++||...  .+++.+..  |++.+|.+++
T Consensus        98 ~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~--r~~~~i~~~~  151 (151)
T cd00009          98 RGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYD--RLDIRIVIPL  151 (151)
T ss_pred             HHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHh--hhccEeecCC
Confidence            23455666666655321  124478889999887  78888888  9998888873

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.99  E-value=7.8e-09  Score=115.70  Aligned_cols=152  Identities=16%  Similarity=0.259  Sum_probs=102.4

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNEL  269 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l  269 (431)
                      ..|+|++...+.|.+.+......-   .... .+...+||+||||||||++|++||..+   +.+++.++++.......+
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl---~~~~-~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGL---SDPN-RPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSV  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccC---CCCC-CCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchH
Confidence            558899988888888776543210   0000 112358999999999999999999987   457888888876433333


Q ss_pred             HHHH---------------HHhhhc-----------ccchhhHHHHHHHHhcCcc--cCC-----CCceEEEEecCCCC-
Q 035603          270 RSLL---------------VDISSK-----------KKKSNVTLSGLLNCIGGLW--STC-----GGERIIVFTTNHVD-  315 (431)
Q Consensus       270 ~~l~---------------~~~~~~-----------~~~~~~~~s~lL~~ldg~~--~~~-----~~~~ivI~TTN~~~-  315 (431)
                      ..++               ......           ...+....+.||+.+|.-.  ...     -.+.+||+|||... 
T Consensus       641 ~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~  720 (852)
T TIGR03346       641 ARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQ  720 (852)
T ss_pred             HHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchH
Confidence            3322               111111           3445667888888885321  111     13578999999721 


Q ss_pred             ------------------------CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          316 ------------------------KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       316 ------------------------~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                              .+.|.|+.  |+|..|.|.+++.+....|+...+.
T Consensus       721 ~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~PL~~e~l~~I~~l~L~  777 (852)
T TIGR03346       721 FIQELAGGDDYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFHPLGREQIARIVEIQLG  777 (852)
T ss_pred             hHhhhcccccHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecCCcCHHHHHHHHHHHHH
Confidence                                    14467776  9999999999999999999988774

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.98  E-value=6.9e-09  Score=115.74  Aligned_cols=152  Identities=17%  Similarity=0.236  Sum_probs=100.3

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNEL  269 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l  269 (431)
                      +.|+|+++..+.|.+.+......-   ...+.| ...+||+||||||||++|+++|..+   +.+++.++++.......+
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl---~~~~~p-~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGL---KNPNRP-IASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTV  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcc---cCCCCC-ceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccH
Confidence            557888888888877665332210   000111 1248999999999999999999987   357888888765332222


Q ss_pred             HHHH-------------------HHhhhc-------ccchhhHHHHHHHHhcCccc-C------CCCceEEEEecCCCCC
Q 035603          270 RSLL-------------------VDISSK-------KKKSNVTLSGLLNCIGGLWS-T------CGGERIIVFTTNHVDK  316 (431)
Q Consensus       270 ~~l~-------------------~~~~~~-------~~~~~~~~s~lL~~ldg~~~-~------~~~~~ivI~TTN~~~~  316 (431)
                      .+++                   ...+..       +.......+.||..+|.-.- .      .-.+.+||+|||....
T Consensus       585 ~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~  664 (821)
T CHL00095        585 SKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSK  664 (821)
T ss_pred             HHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchH
Confidence            2222                   111111       34556678889999884211 1      1135799999995311


Q ss_pred             -------------------------------------CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          317 -------------------------------------LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       317 -------------------------------------Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                                           +.|+|+.  |+|..|.|.+.+.+....|+...+.
T Consensus       665 ~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~pefln--Rid~ii~F~pL~~~~l~~Iv~~~l~  733 (821)
T CHL00095        665 VIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLN--RLDEIIVFRQLTKNDVWEIAEIMLK  733 (821)
T ss_pred             HHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhc--cCCeEEEeCCCCHHHHHHHHHHHHH
Confidence                                                 2356766  9999999999999999999988875

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.98  E-value=5.2e-09  Score=116.63  Aligned_cols=149  Identities=19%  Similarity=0.281  Sum_probs=100.8

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCC-CCCce-eEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK-AWKRG-YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNN  267 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg-~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~  267 (431)
                      +.|+|+++..+.|.+.+.....+      +.- ..|.| +||+||||||||.+|+++|..+   ...++.++++.+....
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~g------l~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAG------LEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAH  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcC------CCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhh
Confidence            46789999988888877654321      111 12444 7999999999999999999988   4567888887653333


Q ss_pred             HHHHHH---------------HHhhhc-----------ccchhhHHHHHHHHhcCcccCCC-------CceEEEEecCCC
Q 035603          268 ELRSLL---------------VDISSK-----------KKKSNVTLSGLLNCIGGLWSTCG-------GERIIVFTTNHV  314 (431)
Q Consensus       268 ~l~~l~---------------~~~~~~-----------~~~~~~~~s~lL~~ldg~~~~~~-------~~~ivI~TTN~~  314 (431)
                      .+..++               .....+           ...+....+.|++.+|.-.-..+       .+.+||+|||..
T Consensus       640 ~~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg  719 (852)
T TIGR03345       640 TVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAG  719 (852)
T ss_pred             hhccccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCc
Confidence            222221               111111           34455667788888864321111       357999999941


Q ss_pred             C-----------------------------CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          315 D-----------------------------KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       315 ~-----------------------------~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .                             .+.|+|+.  |++ .|.|.+.+.+....|+...+.
T Consensus       720 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~pLs~e~l~~Iv~~~L~  781 (852)
T TIGR03345       720 SDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYLPLDDDVLAAIVRLKLD  781 (852)
T ss_pred             hHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeCCCCHHHHHHHHHHHHH
Confidence            1                             15678877  998 788999999999999988875

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.97  E-value=2.2e-08  Score=99.63  Aligned_cols=139  Identities=17%  Similarity=0.214  Sum_probs=96.8

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------------
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------------  254 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------------  254 (431)
                      .|++|+|.+++++.+...+..           | ..+.+|||+||+|+||+++|.++|..+-+.                
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~-----------~-rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~h   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ-----------N-RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            488999999999988765531           1 234589999999999999999999986432                


Q ss_pred             --eEEecccCc-C----------------------ChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhc
Q 035603          255 --VYDLELTSV-E----------------------NNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIG  295 (431)
Q Consensus       255 --i~~l~~~~~-~----------------------~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ld  295 (431)
                        ++.+..... .                      .-+.++++......+              +.-.....+.||..|+
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LE  149 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLE  149 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHh
Confidence              222222100 0                      013455554333222              2334456778999998


Q ss_pred             CcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          296 GLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       296 g~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ..    + ..++|++|+.++.|-|.++.  |. ..|+|+.++.++..+++....
T Consensus       150 EP----p-~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        150 EP----G-NGTLILIAPSPESLLPTIVS--RC-QIIPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             CC----C-CCeEEEEECChHhCcHHHHh--hc-eEEecCCCCHHHHHHHHHHhh
Confidence            54    3 35788888999999999998  44 689999999998888887654

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.97  E-value=2.7e-08  Score=101.82  Aligned_cols=146  Identities=18%  Similarity=0.228  Sum_probs=92.7

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEecccCcCC
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLELTSVEN  265 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~  265 (431)
                      ..+.+++-++..+.|...+...+.+         ..+..+++|||||||||++++.+++++     ++.++.+++....+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~---------~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~   98 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG---------SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT   98 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC
Confidence            3456777777767766665544432         124568999999999999999999877     56788888765432


Q ss_pred             hHH-HHHHHHHh-----------------------hhc--------cc-------chhhHHHHHHHHhcCcccCCCCceE
Q 035603          266 NNE-LRSLLVDI-----------------------SSK--------KK-------KSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       266 ~~~-l~~l~~~~-----------------------~~~--------~~-------~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                      ... +..++...                       ...        ++       .....+..|++.++..   .+.++.
T Consensus        99 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~---~~~~v~  175 (394)
T PRK00411         99 RYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY---PGARIG  175 (394)
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhcc---CCCeEE
Confidence            211 11111111                       000        11       1223455555555443   223577


Q ss_pred             EEEecCCC---CCCChhhhccCce-eEEEEcCCCCHHHHHHHHHHhhc
Q 035603          307 IVFTTNHV---DKLDPALIRRGRM-DKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       307 vI~TTN~~---~~Ld~AllRpGRf-d~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|+++|..   +.+++.+.+  |+ ...|.|++++.++..++++..+.
T Consensus       176 vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~py~~~e~~~il~~r~~  221 (394)
T PRK00411        176 VIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYTADEIFDILKDRVE  221 (394)
T ss_pred             EEEEECCcchhhhcCHHHHh--cCCcceeecCCCCHHHHHHHHHHHHH
Confidence            88888866   467888876  55 36789999999999999888764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.97  E-value=8.2e-09  Score=115.55  Aligned_cols=144  Identities=18%  Similarity=0.238  Sum_probs=96.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|..++.++|.++..+.+++.+    .         ...+...+|+||||||||++++++|..+          +.+++.
T Consensus       168 ~~~~~~~~igr~~ei~~~~~~l----~---------r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~  234 (852)
T TIGR03346       168 REGKLDPVIGRDEEIRRTIQVL----S---------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLA  234 (852)
T ss_pred             hCCCCCcCCCcHHHHHHHHHHH----h---------cCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEE
Confidence            4667899999887655544432    1         1234678999999999999999999985          678888


Q ss_pred             ecccCcC--------ChHHHHHHHHHhhhc--------c--------cchhhHHHHHHHHhcCcccCCCCceEEEEecCC
Q 035603          258 LELTSVE--------NNNELRSLLVDISSK--------K--------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNH  313 (431)
Q Consensus       258 l~~~~~~--------~~~~l~~l~~~~~~~--------~--------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~  313 (431)
                      ++++.+.        ....+..++......        +        +..... ....+.|....  ..+.+.+|++||.
T Consensus       235 l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~-~d~~~~Lk~~l--~~g~i~~IgaTt~  311 (852)
T TIGR03346       235 LDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGA-MDAGNMLKPAL--ARGELHCIGATTL  311 (852)
T ss_pred             eeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcch-hHHHHHhchhh--hcCceEEEEeCcH
Confidence            8776542        123566777655321        0        001100 11223333222  2345888988887


Q ss_pred             CC-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          314 VD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       314 ~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .+     .+|+|+.|  ||. .|.++.|+.+++..|++.+..
T Consensus       312 ~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~~  350 (852)
T TIGR03346       312 DEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLKE  350 (852)
T ss_pred             HHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHHH
Confidence            64     58999999  996 589999999999999887643

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.95  E-value=1.3e-08  Score=102.03  Aligned_cols=138  Identities=17%  Similarity=0.225  Sum_probs=94.8

Q ss_pred             Ccccccc-ChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC---------------
Q 035603          191 TFDTLAM-ASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD---------------  254 (431)
Q Consensus       191 ~f~~l~g-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~---------------  254 (431)
                      .|++|.| .+.+.+.|...+.    .       | ..+..||||||+|+||+++|+++|+.+-+.               
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~----~-------~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~   70 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIA----K-------N-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCK   70 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHH----c-------C-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHH
Confidence            3677777 7777776655432    1       1 245689999999999999999999987432               


Q ss_pred             ---------eEEecccCc-CChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEe
Q 035603          255 ---------VYDLELTSV-ENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFT  310 (431)
Q Consensus       255 ---------i~~l~~~~~-~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~T  310 (431)
                               +..+....- -..+.++++.......              +.-+....+.||..|+.    +++.+++|++
T Consensus        71 ~~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEE----Pp~~~~~Il~  146 (329)
T PRK08058         71 RIDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEE----PSGGTTAILL  146 (329)
T ss_pred             HHhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcC----CCCCceEEEE
Confidence                     333322111 1235566665443321              23345577889999985    3456888899


Q ss_pred             cCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          311 TNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       311 TN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                      |+.+..|.|+++.++   ..|+|++|+.++....++.
T Consensus       147 t~~~~~ll~TIrSRc---~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        147 TENKHQILPTILSRC---QVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             eCChHhCcHHHHhhc---eeeeCCCCCHHHHHHHHHH
Confidence            999999999999844   6799999998887766654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.94  E-value=1.1e-08  Score=114.07  Aligned_cols=137  Identities=20%  Similarity=0.275  Sum_probs=93.7

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEec
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLE  259 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~  259 (431)
                      ..++.|+|-++..+.+.+.+.             ...++++||+||||||||++|+++|..+          +..++.++
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~-------------r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~  242 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILG-------------RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLD  242 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHc-------------ccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee
Confidence            346778888777777665432             2245689999999999999999999976          47899998


Q ss_pred             ccCcC--------ChHHHHHHHHHhhhc-------c----------cchhhHHHHHHH-HhcCcccCCCCceEEEEecCC
Q 035603          260 LTSVE--------NNNELRSLLVDISSK-------K----------KKSNVTLSGLLN-CIGGLWSTCGGERIIVFTTNH  313 (431)
Q Consensus       260 ~~~~~--------~~~~l~~l~~~~~~~-------~----------~~~~~~~s~lL~-~ldg~~~~~~~~~ivI~TTN~  313 (431)
                      ++.+.        ....++.++.++...       +          .......+.+|. .+.      .+++.+|++||.
T Consensus       243 ~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~------rg~l~~IgaTt~  316 (821)
T CHL00095        243 IGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA------RGELQCIGATTL  316 (821)
T ss_pred             HHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh------CCCcEEEEeCCH
Confidence            76542        134677787665432       0          011122333333 222      245788888886


Q ss_pred             CC-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          314 VD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       314 ~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      .+     ..||+|.|  ||. .|.++.|+.++...|++..
T Consensus       317 ~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        317 DEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHH
Confidence            54     57999999  996 4899999998888887653

>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=98.93  E-value=7.3e-10  Score=94.76  Aligned_cols=97  Identities=24%  Similarity=0.304  Sum_probs=55.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHH--HHHhhhc------------------ccchhhHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSL--LVDISSK------------------KKKSNVTLS  288 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l--~~~~~~~------------------~~~~~~~~s  288 (431)
                      .+||.|+||+|||++|+++|..+|.++..+.++.--...+|...  +....+.                  +.....+.+
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            37999999999999999999999999999887632223333221  1111111                  455678899


Q ss_pred             HHHHHhc-------CcccCCCCceEEEEecCCCC-----CCChhhhccCce
Q 035603          289 GLLNCIG-------GLWSTCGGERIIVFTTNHVD-----KLDPALIRRGRM  327 (431)
Q Consensus       289 ~lL~~ld-------g~~~~~~~~~ivI~TTN~~~-----~Ld~AllRpGRf  327 (431)
                      .||..|.       |..-..++..+||+|-|..+     .|+.|++.  ||
T Consensus        81 AlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF  129 (131)
T PF07726_consen   81 ALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RF  129 (131)
T ss_dssp             HHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TS
T ss_pred             HHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--cc
Confidence            9999884       33333445678999999887     79999998  77

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.

>PHA02244 ATPase-like protein

Probab=98.92  E-value=1.2e-08  Score=102.27  Aligned_cols=107  Identities=21%  Similarity=0.281  Sum_probs=69.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHH-----------HHHHHhhhc---------ccchhhH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELR-----------SLLVDISSK---------KKKSNVT  286 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~-----------~l~~~~~~~---------~~~~~~~  286 (431)
                      +..+||+||||||||++|++||..++.+++.++...  +...+.           .-|..+...         +.....+
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~--d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a~p~v  196 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIM--DEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDASIPEA  196 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecCh--HHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcCCHHH
Confidence            357999999999999999999999999999887321  110110           011111111         2233444


Q ss_pred             HHHHHHHhcC-c------ccCCCCceEEEEecCCC-----------CCCChhhhccCceeEEEEcCCCCH
Q 035603          287 LSGLLNCIGG-L------WSTCGGERIIVFTTNHV-----------DKLDPALIRRGRMDKHIEMPYCCF  338 (431)
Q Consensus       287 ~s~lL~~ldg-~------~~~~~~~~ivI~TTN~~-----------~~Ld~AllRpGRfd~~I~~~~p~~  338 (431)
                      ...|...++. .      .-....++-+|+|+|.+           ..|++|++.  || .+|++++|+.
T Consensus       197 q~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RF-v~I~~dyp~~  263 (383)
T PHA02244        197 LIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RF-APIEFDYDEK  263 (383)
T ss_pred             HHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hc-EEeeCCCCcH
Confidence            5556666542 1      01122457899999973           578999999  99 5799999984

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.92  E-value=2.6e-08  Score=99.71  Aligned_cols=144  Identities=20%  Similarity=0.222  Sum_probs=92.4

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-------CCCeE-------
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-------NYDVY-------  256 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-------~~~i~-------  256 (431)
                      +|..|+|.+++|..+.-.+..+             ...++||.||||+|||++++++++.+       ++++-       
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~-------------~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~   68 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDP-------------KIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPE   68 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCC-------------CCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCcc
Confidence            5889999999998875433221             23479999999999999999999877       22211       


Q ss_pred             ------E------------------ecccC------cCChHHHHHHHH------------Hhhhc-------ccchhhHH
Q 035603          257 ------D------------------LELTS------VENNNELRSLLV------------DISSK-------KKKSNVTL  287 (431)
Q Consensus       257 ------~------------------l~~~~------~~~~~~l~~l~~------------~~~~~-------~~~~~~~~  287 (431)
                            .                  .++..      +.+.-.+...+.            ++.+.       +.-+....
T Consensus        69 ~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q  148 (337)
T TIGR02030        69 MMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLV  148 (337)
T ss_pred             ccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHH
Confidence                  0                  01110      101111222111            11101       23345667


Q ss_pred             HHHHHHhcC---------cccCCCCceEEEEecCCCC-CCChhhhccCceeEEEEcCCCCH-HHHHHHHHHhh
Q 035603          288 SGLLNCIGG---------LWSTCGGERIIVFTTNHVD-KLDPALIRRGRMDKHIEMPYCCF-EAFKVLAKNYL  349 (431)
Q Consensus       288 s~lL~~ldg---------~~~~~~~~~ivI~TTN~~~-~Ld~AllRpGRfd~~I~~~~p~~-~~r~~i~~~~l  349 (431)
                      +.|++.|+.         ........+++|+|+|..+ .|+++|+.  ||.+++.+++|+. +++.+|++...
T Consensus       149 ~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~eer~eIL~~~~  219 (337)
T TIGR02030       149 DVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVELRVEIVERRT  219 (337)
T ss_pred             HHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHHHHHHHHhhh
Confidence            788888742         2222233468888888655 79999999  9999999999975 88888888754

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.88  E-value=2e-08  Score=104.36  Aligned_cols=184  Identities=16%  Similarity=0.235  Sum_probs=100.3

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~  259 (431)
                      ++.+..+|++.+..+.-.. ....+..+..++      |  +..+++||||||||||+|++|+|+++     +..++.++
T Consensus        97 ~l~~~~tFdnFv~g~~n~~-a~~~~~~~~~~~------~--~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~  167 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSF-AYHAALEVAKNP------G--RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT  167 (440)
T ss_pred             CCCCCCcccccccCCchHH-HHHHHHHHHhCc------C--CCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence            3455678999764333222 223343333322      2  23469999999999999999999986     45667666


Q ss_pred             ccCcCCh-------HHHHHHHHHhhhc------ccc-----hhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CC
Q 035603          260 LTSVENN-------NELRSLLVDISSK------KKK-----SNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LD  318 (431)
Q Consensus       260 ~~~~~~~-------~~l~~l~~~~~~~------~~~-----~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld  318 (431)
                      ..++...       ..+..+.......      ++.     ...+...|+..++.+....  ..+||.+.+.|..   ++
T Consensus       168 ~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~--k~iIitsd~~p~~l~~l~  245 (440)
T PRK14088        168 SEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSG--KQIVICSDREPQKLSEFQ  245 (440)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcC--CeEEEECCCCHHHHHHHH
Confidence            5443100       0111111111111      111     1122344555555554322  2444444455554   55


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHH-HHhHhccCCCCHHHHHHHhc
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHE-IGSLLGETDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~-i~~l~~~~~~s~adI~~~l~  379 (431)
                      +.+..+......+.+..|+.+.|..|++.........+.++ +.-+++...=+..++.+.+.
T Consensus       246 ~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~  307 (440)
T PRK14088        246 DRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAII  307 (440)
T ss_pred             HHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHH
Confidence            67777222357889999999999999998875433333333 34444443445555555443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.87  E-value=1.1e-07  Score=103.35  Aligned_cols=147  Identities=16%  Similarity=0.191  Sum_probs=87.7

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEecccC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLELTS  262 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~~~~  262 (431)
                      +.|.+-++..+.|...+...+..        -.....++++||||||||.+++.+..+|          .+.++.+++..
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            45556566666655555444432        2233445799999999999999998766          25678888866


Q ss_pred             cCChHH-----------------------HHHHHHHhhhc---------ccch---hhHHHHHHHHhcCcccCCCCceEE
Q 035603          263 VENNNE-----------------------LRSLLVDISSK---------KKKS---NVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       263 ~~~~~~-----------------------l~~l~~~~~~~---------~~~~---~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                      +.+...                       +..+|......         ++..   ...-..|++.++... ..+..++|
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~-~s~SKLiL  905 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT-KINSKLVL  905 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh-ccCCeEEE
Confidence            543322                       22222221110         0000   001112333333221 13445889


Q ss_pred             EEecCC---CCCCChhhhccCceeE-EEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNH---VDKLDPALIRRGRMDK-HIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~---~~~Ld~AllRpGRfd~-~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |+++|.   ++.|+|.+..  ||.. .|.|++++.+++.+|++..+.
T Consensus       906 IGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe  950 (1164)
T PTZ00112        906 IAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLE  950 (1164)
T ss_pred             EEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHH
Confidence            999985   5678888887  5543 488899999999999988775

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

Probab=98.87  E-value=2.2e-08  Score=99.33  Aligned_cols=109  Identities=23%  Similarity=0.297  Sum_probs=77.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC------------------------CCeEEecccCcCC----hHHHHHHHHHhhhc-
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN------------------------YDVYDLELTSVEN----NNELRSLLVDISSK-  279 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~------------------------~~i~~l~~~~~~~----~~~l~~l~~~~~~~-  279 (431)
                      .+||+||||||||++|.++|+++.                        .+++.++.++...    .+.++++....... 
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            799999999999999999999988                        5888898888755    23444443322211 


Q ss_pred             -------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHH
Q 035603          280 -------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL  344 (431)
Q Consensus       280 -------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i  344 (431)
                                   +.-.....+.++..+..    +.....+|++||.+..+-|.+..++   ..+.|+.|+...+...
T Consensus       106 ~~~~~kviiidead~mt~~A~nallk~lEe----p~~~~~~il~~n~~~~il~tI~SRc---~~i~f~~~~~~~~i~~  176 (325)
T COG0470         106 LEGGYKVVIIDEADKLTEDAANALLKTLEE----PPKNTRFILITNDPSKILPTIRSRC---QRIRFKPPSRLEAIAW  176 (325)
T ss_pred             CCCCceEEEeCcHHHHhHHHHHHHHHHhcc----CCCCeEEEEEcCChhhccchhhhcc---eeeecCCchHHHHHHH
Confidence                         22233445667777663    4556899999999999999888843   5788877665544433

>PRK08727 hypothetical protein; Validated

Probab=98.86  E-value=6.3e-08  Score=92.35  Aligned_cols=146  Identities=20%  Similarity=0.246  Sum_probs=83.6

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.....+|++.++.+.-   ....+.....        | .+...++|+||||||||.|++|+++++   +..+..++..
T Consensus        11 ~~~~~~~f~~f~~~~~n---~~~~~~~~~~--------~-~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~   78 (233)
T PRK08727         11 RYPSDQRFDSYIAAPDG---LLAQLQALAA--------G-QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQ   78 (233)
T ss_pred             CCCCcCChhhccCCcHH---HHHHHHHHHh--------c-cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHH
Confidence            34445789997765542   1122211111        1 133569999999999999999997764   4555555544


Q ss_pred             CcCChHHHHHHHHHhhhc-----cc-----chhhHHHHHHHHhcCcccCCCCceEEEEecC-CCCCC---ChhhhccCce
Q 035603          262 SVENNNELRSLLVDISSK-----KK-----KSNVTLSGLLNCIGGLWSTCGGERIIVFTTN-HVDKL---DPALIRRGRM  327 (431)
Q Consensus       262 ~~~~~~~l~~l~~~~~~~-----~~-----~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN-~~~~L---d~AllRpGRf  327 (431)
                      ...  ..+.+.+......     +.     ........+++.++..... +  .-+|+|+| .|..+   +|+|.+  ||
T Consensus        79 ~~~--~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~-~--~~vI~ts~~~p~~l~~~~~dL~S--Rl  151 (233)
T PRK08727         79 AAA--GRLRDALEALEGRSLVALDGLESIAGQREDEVALFDFHNRARAA-G--ITLLYTARQMPDGLALVLPDLRS--RL  151 (233)
T ss_pred             Hhh--hhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHc-C--CeEEEECCCChhhhhhhhHHHHH--HH
Confidence            432  1223333222221     11     1111223344444443221 2  33555554 66655   799998  65


Q ss_pred             --eEEEEcCCCCHHHHHHHHHHhh
Q 035603          328 --DKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       328 --d~~I~~~~p~~~~r~~i~~~~l  349 (431)
                        -..++++.|+.+++..+++...
T Consensus       152 ~~~~~~~l~~~~~e~~~~iL~~~a  175 (233)
T PRK08727        152 AQCIRIGLPVLDDVARAAVLRERA  175 (233)
T ss_pred             hcCceEEecCCCHHHHHHHHHHHH
Confidence              5789999999999999998754

>PRK05642 DNA replication initiation factor; Validated

Probab=98.85  E-value=6.7e-08  Score=92.23  Aligned_cols=152  Identities=16%  Similarity=0.117  Sum_probs=86.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      ...+..+|++.+...  .....+.+..+....      +-...+.++||||+|||||.|++|+++++   +..++.++..
T Consensus        11 ~~~~~~tfdnF~~~~--~~~a~~~~~~~~~~~------~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~   82 (234)
T PRK05642         11 RLRDDATFANYYPGA--NAAALGYVERLCEAD------AGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLA   82 (234)
T ss_pred             CCCCcccccccCcCC--hHHHHHHHHHHhhcc------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHH
Confidence            344457899876332  233334443332211      11113678999999999999999999764   5667777665


Q ss_pred             CcCCh-HHHHHHHHHhh-------hcccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CChhhhccCce--e
Q 035603          262 SVENN-NELRSLLVDIS-------SKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LDPALIRRGRM--D  328 (431)
Q Consensus       262 ~~~~~-~~l~~l~~~~~-------~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld~AllRpGRf--d  328 (431)
                      ++... ..+.+.+....       ............|++.++.....  +..+||.++..|..   +.|.|..  |+  -
T Consensus        83 ~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~--g~~ilits~~~p~~l~~~~~~L~S--Rl~~g  158 (234)
T PRK05642         83 ELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDS--GRRLLLAASKSPRELPIKLPDLKS--RLTLA  158 (234)
T ss_pred             HHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhc--CCEEEEeCCCCHHHcCccCccHHH--HHhcC
Confidence            54311 12222221110       00111122334566666555322  23555555545533   3689988  76  4


Q ss_pred             EEEEcCCCCHHHHHHHHHHh
Q 035603          329 KHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       329 ~~I~~~~p~~~~r~~i~~~~  348 (431)
                      ..+.+..|+.+.+..+++..
T Consensus       159 l~~~l~~~~~e~~~~il~~k  178 (234)
T PRK05642        159 LVFQMRGLSDEDKLRALQLR  178 (234)
T ss_pred             eeeecCCCCHHHHHHHHHHH
Confidence            77889999999999998754

>PRK06620 hypothetical protein; Validated

Probab=98.83  E-value=5.1e-08  Score=91.79  Aligned_cols=141  Identities=17%  Similarity=0.199  Sum_probs=80.0

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCC-CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK-AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN  265 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~  265 (431)
                      .++.+|++++..+.-.. ....+..+..      .++. |..+.++||||||||||+|++++++..+..++.  ....  
T Consensus        10 ~~~~tfd~Fvvg~~N~~-a~~~~~~~~~------~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~~--   78 (214)
T PRK06620         10 SSKYHPDEFIVSSSNDQ-AYNIIKNWQC------GFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIFF--   78 (214)
T ss_pred             CCCCCchhhEecccHHH-HHHHHHHHHH------ccccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhhh--
Confidence            34467888765542222 2333333322      1232 223789999999999999999999988753322  1110  


Q ss_pred             hHHHHHHHHHhhhc------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC--CChhhhccCcee--EEEEcCC
Q 035603          266 NNELRSLLVDISSK------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK--LDPALIRRGRMD--KHIEMPY  335 (431)
Q Consensus       266 ~~~l~~l~~~~~~~------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~--Ld~AllRpGRfd--~~I~~~~  335 (431)
                      ..   ..+.. ..-      +......+-.++|.+.   ..  +..++|.++..|..  + |+|+.  |+.  ..+.+..
T Consensus        79 ~~---~~~~~-~d~lliDdi~~~~~~~lf~l~N~~~---e~--g~~ilits~~~p~~l~l-~~L~S--Rl~~gl~~~l~~  146 (214)
T PRK06620         79 NE---EILEK-YNAFIIEDIENWQEPALLHIFNIIN---EK--QKYLLLTSSDKSRNFTL-PDLSS--RIKSVLSILLNS  146 (214)
T ss_pred             ch---hHHhc-CCEEEEeccccchHHHHHHHHHHHH---hc--CCEEEEEcCCCccccch-HHHHH--HHhCCceEeeCC
Confidence            01   11100 000      1112233334444443   22  23566666655543  5 88888  774  4799999


Q ss_pred             CCHHHHHHHHHHhhc
Q 035603          336 CCFEAFKVLAKNYLE  350 (431)
Q Consensus       336 p~~~~r~~i~~~~l~  350 (431)
                      |+.+.+..+++....
T Consensus       147 pd~~~~~~~l~k~~~  161 (214)
T PRK06620        147 PDDELIKILIFKHFS  161 (214)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999988877653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.82  E-value=2.8e-08  Score=103.33  Aligned_cols=118  Identities=19%  Similarity=0.308  Sum_probs=74.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHH--------HHHHhhhc------c-----cchhh
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRS--------LLVDISSK------K-----KKSNV  285 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~--------l~~~~~~~------~-----~~~~~  285 (431)
                      .+++||||||+|||+|++|+|+++   +..++.++...+..  .+..        .|......      +     .....
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~--~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~  219 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE--HLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGA  219 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH--HHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChh
Confidence            579999999999999999999976   56777776543311  1111        11111111      1     11122


Q ss_pred             HHHHHHHHhcCcccCCCCceEEEEecCC-C---CCCChhhhccCcee--EEEEcCCCCHHHHHHHHHHhhchh
Q 035603          286 TLSGLLNCIGGLWSTCGGERIIVFTTNH-V---DKLDPALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       286 ~~s~lL~~ldg~~~~~~~~~ivI~TTN~-~---~~Ld~AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      +...|+..++.+... +  ..+|+|+|. |   ..+++.|.+  ||.  ..+.++.|+.+.+..+++......
T Consensus       220 ~qeelf~l~N~l~~~-~--k~IIlts~~~p~~l~~l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~~k~~~~  287 (445)
T PRK12422        220 TQEEFFHTFNSLHTE-G--KLIVISSTCAPQDLKAMEERLIS--RFEWGIAIPLHPLTKEGLRSFLERKAEAL  287 (445)
T ss_pred             hHHHHHHHHHHHHHC-C--CcEEEecCCCHHHHhhhHHHHHh--hhcCCeEEecCCCCHHHHHHHHHHHHHHc
Confidence            333444444444322 2  345555554 4   357899998  885  899999999999999998876543

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

Probab=98.80  E-value=4e-08  Score=100.92  Aligned_cols=106  Identities=18%  Similarity=0.228  Sum_probs=63.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC-------eEEeccc----C----c--C------ChHHHHHHHHHhhhc----
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD-------VYDLELT----S----V--E------NNNELRSLLVDISSK----  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~-------i~~l~~~----~----~--~------~~~~l~~l~~~~~~~----  279 (431)
                      ++.++|+||||||||++|+++|..++..       .+.+...    +    .  .      ....+.+++..+...    
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~  273 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKK  273 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCCeEecCchHHHHHHHHHhcccCC
Confidence            5689999999999999999999988532       1111110    0    0  0      011223333333321    


Q ss_pred             ---------ccchhhHHHHHHHHhcCc--------c----------cCCCCceEEEEecCCCC----CCChhhhccCcee
Q 035603          280 ---------KKKSNVTLSGLLNCIGGL--------W----------STCGGERIIVFTTNHVD----KLDPALIRRGRMD  328 (431)
Q Consensus       280 ---------~~~~~~~~s~lL~~ldg~--------~----------~~~~~~~ivI~TTN~~~----~Ld~AllRpGRfd  328 (431)
                               .......+..++..|+.-        .          -.-..++.||+|+|..|    .+|.||+|  ||.
T Consensus       274 ~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~  351 (459)
T PRK11331        274 YVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFS  351 (459)
T ss_pred             cEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCCCeEEEEecCccccchhhccHHHHh--hhh
Confidence                     122234456666666521        0          01234689999999888    79999999  885


Q ss_pred             EEEEcCC
Q 035603          329 KHIEMPY  335 (431)
Q Consensus       329 ~~I~~~~  335 (431)
                      . |++.+
T Consensus       352 f-i~i~p  357 (459)
T PRK11331        352 F-IDIEP  357 (459)
T ss_pred             e-EEecC
Confidence            4 55554

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.80  E-value=7.4e-08  Score=102.50  Aligned_cols=182  Identities=14%  Similarity=0.189  Sum_probs=100.5

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~  259 (431)
                      .+....+|++.+..+.-. .....+......      .+. +...++|||++|||||.|++|||+++     ++.++.++
T Consensus       280 ~L~~~~TFDnFvvG~sN~-~A~aaa~avae~------~~~-~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit  351 (617)
T PRK14086        280 RLNPKYTFDTFVIGASNR-FAHAAAVAVAEA------PAK-AYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS  351 (617)
T ss_pred             CCCCCCCHhhhcCCCccH-HHHHHHHHHHhC------ccc-cCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence            344557899876544322 112222222221      122 23469999999999999999999986     46677776


Q ss_pred             ccCcCCh--HHHH----HHHHHhhhc-----------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCC----CCCC
Q 035603          260 LTSVENN--NELR----SLLVDISSK-----------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV----DKLD  318 (431)
Q Consensus       260 ~~~~~~~--~~l~----~l~~~~~~~-----------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~----~~Ld  318 (431)
                      +..+...  ..+.    ..|......           -.....+...|++.++.+... +  .-||+|+|.+    ..++
T Consensus       352 aeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~-g--k~IIITSd~~P~eL~~l~  428 (617)
T PRK14086        352 SEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNA-N--KQIVLSSDRPPKQLVTLE  428 (617)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhc-C--CCEEEecCCChHhhhhcc
Confidence            6543210  0000    011111111           111122334555666555432 2  2344577654    3678


Q ss_pred             hhhhccCce--eEEEEcCCCCHHHHHHHHHHhhchhcchhHHHH-HhHhccCCCCHHHHHHHhc
Q 035603          319 PALIRRGRM--DKHIEMPYCCFEAFKVLAKNYLEIESHELFHEI-GSLLGETDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRf--d~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i-~~l~~~~~~s~adI~~~l~  379 (431)
                      +.|.+  ||  -..+++..|+.+.|..|++.........+.+++ .-|+....=+..++..++.
T Consensus       429 ~rL~S--Rf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~  490 (617)
T PRK14086        429 DRLRN--RFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALI  490 (617)
T ss_pred             HHHHh--hhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHH
Confidence            99998  66  677899999999999999988754433333333 2333333334455554443

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.79  E-value=8.6e-08  Score=96.11  Aligned_cols=117  Identities=17%  Similarity=0.197  Sum_probs=84.8

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCC-------------------------eEEecccC-----------------
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYD-------------------------VYDLELTS-----------------  262 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-------------------------i~~l~~~~-----------------  262 (431)
                      ..+.+|||+||+|+||+++|+++|..+.+.                         ++.+....                 
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~   98 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADA   98 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchh
Confidence            446799999999999999999999987652                         22221110                 


Q ss_pred             ------------cCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          263 ------------VENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       263 ------------~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                                  .-.-++++.+......+              +.-....-+.||..|+.    +++++++|++|++++.
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEE----Pp~~t~fiL~t~~~~~  174 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEE----PPPGTVFLLVSARIDR  174 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcC----CCcCcEEEEEECChhh
Confidence                        01224566655443322              33345677999999994    4566999999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      |.|.+++  |. ..|.|++|+.++..+.+...
T Consensus       175 LLpTI~S--Rc-q~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        175 LLPTILS--RC-RQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             CcHHHHh--cC-EEEEecCCCHHHHHHHHHHc
Confidence            9999998  55 68999999998888777653

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.72  E-value=9.5e-08  Score=103.72  Aligned_cols=143  Identities=17%  Similarity=0.150  Sum_probs=91.1

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC------------------
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN------------------  252 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~------------------  252 (431)
                      +|..|+|++.+|..+.-.+.    .+         .-.|+||+||||||||++|++|+..+.                  
T Consensus         2 pf~~ivGq~~~~~al~~~av----~~---------~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~   68 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAV----DP---------RIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPE   68 (633)
T ss_pred             CcchhcChHHHHHHHHHHhh----CC---------CCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCcc
Confidence            47899999988876643222    11         124799999999999999999999882                  


Q ss_pred             -----------------CCeEEecccCc----CChHHHHHHHHHhh------------hc-------ccchhhHHHHHHH
Q 035603          253 -----------------YDVYDLELTSV----ENNNELRSLLVDIS------------SK-------KKKSNVTLSGLLN  292 (431)
Q Consensus       253 -----------------~~i~~l~~~~~----~~~~~l~~l~~~~~------------~~-------~~~~~~~~s~lL~  292 (431)
                                       .+|+.+.++..    -+..++...+....            ..       +.......+.||+
T Consensus        69 ~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~  148 (633)
T TIGR02442        69 EWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLD  148 (633)
T ss_pred             ccChhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHH
Confidence                             34554433321    01111222221110            00       2344567788888


Q ss_pred             HhcCc---------ccCCCCceEEEEecCCC-CCCChhhhccCceeEEEEcCCCC-HHHHHHHHHHh
Q 035603          293 CIGGL---------WSTCGGERIIVFTTNHV-DKLDPALIRRGRMDKHIEMPYCC-FEAFKVLAKNY  348 (431)
Q Consensus       293 ~ldg~---------~~~~~~~~ivI~TTN~~-~~Ld~AllRpGRfd~~I~~~~p~-~~~r~~i~~~~  348 (431)
                      .|+.-         .......+++|+|+|.. ..|.++|+.  ||+++|.++++. .+++.++++..
T Consensus       149 ~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~~~~~il~~~  213 (633)
T TIGR02442       149 AAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPEERVEIIRRR  213 (633)
T ss_pred             HHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchHHHHHHHHHH
Confidence            88521         11112347889999964 368999999  999999999985 56677776653

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.71  E-value=2.5e-07  Score=87.39  Aligned_cols=155  Identities=20%  Similarity=0.244  Sum_probs=81.9

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEecccCc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLELTSV  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~~~~~  263 (431)
                      .-||++.+-.+.-+.. ...+......+      |. .-..++||||+|+|||.|.+|+++++     +..++.++....
T Consensus         4 ~~tFdnfv~g~~N~~a-~~~~~~ia~~~------~~-~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f   75 (219)
T PF00308_consen    4 KYTFDNFVVGESNELA-YAAAKAIAENP------GE-RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEF   75 (219)
T ss_dssp             T-SCCCS--TTTTHHH-HHHHHHHHHST------TT-SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHH
T ss_pred             CCccccCCcCCcHHHH-HHHHHHHHhcC------CC-CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHH
Confidence            3678887543332222 23333333332      22 22468999999999999999999874     456666665443


Q ss_pred             CCh-------HHHHHHHHHhhhc----------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CChhhhc
Q 035603          264 ENN-------NELRSLLVDISSK----------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LDPALIR  323 (431)
Q Consensus       264 ~~~-------~~l~~l~~~~~~~----------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld~AllR  323 (431)
                      ...       ..+.++.......          -.....+...|.+.++.+...  +..+||.+...|..   ++|.|..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~--~k~li~ts~~~P~~l~~~~~~L~S  153 (219)
T PF00308_consen   76 IREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIES--GKQLILTSDRPPSELSGLLPDLRS  153 (219)
T ss_dssp             HHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHT--TSEEEEEESS-TTTTTTS-HHHHH
T ss_pred             HHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhh--CCeEEEEeCCCCccccccChhhhh
Confidence            100       0111111111111          112233455666666665433  23555555556554   5688877


Q ss_pred             cCce--eEEEEcCCCCHHHHHHHHHHhhchhcch
Q 035603          324 RGRM--DKHIEMPYCCFEAFKVLAKNYLEIESHE  355 (431)
Q Consensus       324 pGRf--d~~I~~~~p~~~~r~~i~~~~l~~~~~~  355 (431)
                        ||  -..+.+..|+.+.|..+++.........
T Consensus       154 --Rl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~  185 (219)
T PF00308_consen  154 --RLSWGLVVELQPPDDEDRRRILQKKAKERGIE  185 (219)
T ss_dssp             --HHHCSEEEEE----HHHHHHHHHHHHHHTT--
T ss_pred             --hHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC
Confidence              55  3589999999999999999887644333

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.70  E-value=1.6e-07  Score=97.22  Aligned_cols=118  Identities=20%  Similarity=0.233  Sum_probs=72.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCcCChHHH------HHH-----HHH-hhh---c---------c
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSVENNNEL------RSL-----LVD-ISS---K---------K  280 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~~~~~~l------~~l-----~~~-~~~---~---------~  280 (431)
                      ...+||+||||||||++|++||..++.  +|..+..... +..++      ...     |.. ..+   .         .
T Consensus        39 g~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~ft-tp~DLfG~l~i~~~~~~g~f~r~~~G~L~~A~lLfLDEI~  117 (498)
T PRK13531         39 GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS-TPEEVFGPLSIQALKDEGRYQRLTSGYLPEAEIVFLDEIW  117 (498)
T ss_pred             CCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeec-CcHHhcCcHHHhhhhhcCchhhhcCCccccccEEeecccc
Confidence            468999999999999999999997653  2332222210 11111      111     100 000   0         4


Q ss_pred             cchhhHHHHHHHHhc-CcccCCC-----CceEEEEecCCCC---CCChhhhccCceeEEEEcCCCC-HHHHHHHHHH
Q 035603          281 KKSNVTLSGLLNCIG-GLWSTCG-----GERIIVFTTNHVD---KLDPALIRRGRMDKHIEMPYCC-FEAFKVLAKN  347 (431)
Q Consensus       281 ~~~~~~~s~lL~~ld-g~~~~~~-----~~~ivI~TTN~~~---~Ld~AllRpGRfd~~I~~~~p~-~~~r~~i~~~  347 (431)
                      ..+..+.+.||..|. +.....+     ..+++++|||...   ...+|+..  ||-++|.+|+|+ .+..+.|+..
T Consensus       118 rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~  192 (498)
T PRK13531        118 KAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTS  192 (498)
T ss_pred             cCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHh--hEEEEEECCCCCchHHHHHHHHc
Confidence            456778899999993 3221111     2357777788432   23359999  999999999997 5666777765

>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=98.70  E-value=1.6e-08  Score=91.82  Aligned_cols=88  Identities=24%  Similarity=0.352  Sum_probs=63.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC----CeEEecccCcCC----hHHHHHHHHHhhhc--------------ccchh-
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY----DVYDLELTSVEN----NNELRSLLVDISSK--------------KKKSN-  284 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~----~i~~l~~~~~~~----~~~l~~l~~~~~~~--------------~~~~~-  284 (431)
                      ..+||.||+|||||.+|+++|..+..    +++.+|++.+..    ...+..++......              +.... 
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~~~   83 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAHPS   83 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCSHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhcccc
Confidence            46899999999999999999999996    999999999876    33445554433222              33444 


Q ss_pred             ----------hHHHHHHHHhcCcccC--CC-----CceEEEEecCCCC
Q 035603          285 ----------VTLSGLLNCIGGLWST--CG-----GERIIVFTTNHVD  315 (431)
Q Consensus       285 ----------~~~s~lL~~ldg~~~~--~~-----~~~ivI~TTN~~~  315 (431)
                                ...+.||..||+-.-.  .+     .+.++|+|+|--.
T Consensus        84 ~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   84 NSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             TTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             ccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence                      6778899988753221  11     3579999999653

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 ....

>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=98.70  E-value=4.6e-07  Score=90.34  Aligned_cols=65  Identities=29%  Similarity=0.424  Sum_probs=47.2

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEecccCcC
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN--YDVYDLELTSVE  264 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l~~~~~~  264 (431)
                      .+.++|+.+.++..-= +...++.       |.--.|++||.||||||||.||-+||++||  .||+.++.+++.
T Consensus        23 ~~GlVGQ~~AReAagi-iv~mIk~-------~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiy   89 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGI-IVDMIKE-------GKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIY   89 (398)
T ss_dssp             ETTEES-HHHHHHHHH-HHHHHHT-------T--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-
T ss_pred             cccccChHHHHHHHHH-HHHHHhc-------ccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceee
Confidence            4789999999888643 3333332       334578999999999999999999999998  789999988874

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.69  E-value=7.5e-08  Score=81.70  Aligned_cols=37  Identities=32%  Similarity=0.517  Sum_probs=31.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC---eEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD---VYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~---i~~l~~~~~  263 (431)
                      +..++|+||||||||++++++|..+...   ++.++....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~   41 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDI   41 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEc
Confidence            4579999999999999999999999886   777776643

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.69  E-value=2.3e-07  Score=97.95  Aligned_cols=70  Identities=34%  Similarity=0.508  Sum_probs=56.4

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ..|.  ..-.|.+.++|+...+..+++..++...+.        +....+-+||+||||||||++++++|+++|+.+.+.
T Consensus         7 ~~W~--~ky~P~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew   76 (519)
T PF03215_consen    7 EPWV--EKYAPKTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEW   76 (519)
T ss_pred             Cccc--hhcCCCCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEe
Confidence            4675  667899999999998877777776664432        334456788999999999999999999999998875

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.68  E-value=2e-07  Score=97.17  Aligned_cols=177  Identities=14%  Similarity=0.219  Sum_probs=98.7

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEecccCc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLELTSV  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~~~~~  263 (431)
                      +.+|++.+..+.- +.....+..+...+      |.. ..+++||||+|||||+|++|+++++     +..++.++..++
T Consensus       111 ~~tFdnFv~g~~n-~~A~~aa~~~a~~~------~~~-~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f  182 (450)
T PRK14087        111 ENTFENFVIGSSN-EQAFIAVQTVSKNP------GIS-YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEF  182 (450)
T ss_pred             ccchhcccCCCcH-HHHHHHHHHHHhCc------Ccc-cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH
Confidence            4688886644332 22334444443322      322 2579999999999999999999965     356666665543


Q ss_pred             CCh---------HHHHHHHHHhhhc-----c-----cchhhHHHHHHHHhcCcccCCCCceEEEEecCC-CC---CCChh
Q 035603          264 ENN---------NELRSLLVDISSK-----K-----KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNH-VD---KLDPA  320 (431)
Q Consensus       264 ~~~---------~~l~~l~~~~~~~-----~-----~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~-~~---~Ld~A  320 (431)
                      ...         ..+..+.......     +     .....+...|...++.+... +  .-+|+|+|. |+   .+++.
T Consensus       183 ~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~-~--k~iIltsd~~P~~l~~l~~r  259 (450)
T PRK14087        183 ARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIEN-D--KQLFFSSDKSPELLNGFDNR  259 (450)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHc-C--CcEEEECCCCHHHHhhccHH
Confidence            110         1111111111111     1     11123444555555544332 2  245666654 33   46788


Q ss_pred             hhccCce--eEEEEcCCCCHHHHHHHHHHhhchhcc--hh-HHHHHhHhccCCCCHHHHHHHh
Q 035603          321 LIRRGRM--DKHIEMPYCCFEAFKVLAKNYLEIESH--EL-FHEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       321 llRpGRf--d~~I~~~~p~~~~r~~i~~~~l~~~~~--~~-~~~i~~l~~~~~~s~adI~~~l  378 (431)
                      |..  ||  ...+.+..|+.+.+.+++++.+.....  .+ .+.+.-++...+=++..+.++|
T Consensus       260 L~S--R~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL  320 (450)
T PRK14087        260 LIT--RFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSV  320 (450)
T ss_pred             HHH--HHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHH
Confidence            888  66  478899999999999999988764321  12 2233444444444555555554

>PRK09087 hypothetical protein; Validated

Probab=98.67  E-value=1.1e-07  Score=90.17  Aligned_cols=117  Identities=12%  Similarity=0.117  Sum_probs=68.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhcccc--hhhHHHHHHHHhcCcccCCCCce
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKK--SNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~--~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                      +.++|+||+|+|||+|+++++...+..++...  ... .+.+..+....---+..  ...+-.+|.+.++.+...  +..
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~~--~~~-~~~~~~~~~~~l~iDDi~~~~~~~~~lf~l~n~~~~~--g~~  119 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKSDALLIHPN--EIG-SDAANAAAEGPVLIEDIDAGGFDETGLFHLINSVRQA--GTS  119 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhcCCEEecHH--Hcc-hHHHHhhhcCeEEEECCCCCCCCHHHHHHHHHHHHhC--CCe
Confidence            45899999999999999999998776554432  211 11111111000000000  001123355555544322  224


Q ss_pred             EEEEecCCCCC---CChhhhccCcee--EEEEcCCCCHHHHHHHHHHhhch
Q 035603          306 IIVFTTNHVDK---LDPALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       306 ivI~TTN~~~~---Ld~AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +||.++..|..   ..|.|+.  |+.  ..+++..|+.+.+..+++.....
T Consensus       120 ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~~  168 (226)
T PRK09087        120 LLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLFAD  168 (226)
T ss_pred             EEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHHHHHHHH
Confidence            55555444432   3688887  775  88999999999999999988754

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

Probab=98.66  E-value=8.3e-07  Score=87.46  Aligned_cols=64  Identities=30%  Similarity=0.465  Sum_probs=49.0

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEecccCcC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN--YDVYDLELTSVE  264 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l~~~~~~  264 (431)
                      +.++|+.+.++.-= -+...++       -|.-..||+|+.||||||||-||-+||++||  .||+.++.+++.
T Consensus        39 dG~VGQ~~AReAaG-vIv~mik-------~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiY  104 (450)
T COG1224          39 DGLVGQEEAREAAG-VIVKMIK-------QGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIY  104 (450)
T ss_pred             CcccchHHHHHhhh-HHHHHHH-------hCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceee
Confidence            56788888877632 2222222       2556689999999999999999999999998  578888888774

>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=98.65  E-value=5.1e-07  Score=81.25  Aligned_cols=103  Identities=21%  Similarity=0.301  Sum_probs=70.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC-----------------------CeEEecccCc---CChHHHHHHHHHhhhc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY-----------------------DVYDLELTSV---ENNNELRSLLVDISSK  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~-----------------------~i~~l~~~~~---~~~~~l~~l~~~~~~~  279 (431)
                      .+..|||+||+|+||+++|.++|+.+-.                       +++.++....   -..+.++++.......
T Consensus        18 l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~   97 (162)
T PF13177_consen   18 LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLS   97 (162)
T ss_dssp             --SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHH
Confidence            4568999999999999999999986532                       3444444432   2346677766554433


Q ss_pred             --------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCC
Q 035603          280 --------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPY  335 (431)
Q Consensus       280 --------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~  335 (431)
                                    +.-.....+.||..|+.    +++.+++|++|+.++.|.|.++.  |. ..|.|+.
T Consensus        98 ~~~~~~KviiI~~ad~l~~~a~NaLLK~LEe----pp~~~~fiL~t~~~~~il~TI~S--Rc-~~i~~~~  160 (162)
T PF13177_consen   98 PSEGKYKVIIIDEADKLTEEAQNALLKTLEE----PPENTYFILITNNPSKILPTIRS--RC-QVIRFRP  160 (162)
T ss_dssp             -TTSSSEEEEEETGGGS-HHHHHHHHHHHHS----TTTTEEEEEEES-GGGS-HHHHT--TS-EEEEE--
T ss_pred             HhcCCceEEEeehHhhhhHHHHHHHHHHhcC----CCCCEEEEEEECChHHChHHHHh--hc-eEEecCC
Confidence                          44566788999999995    45669999999999999999998  43 4566554

...

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.64  E-value=2e-06  Score=85.69  Aligned_cols=115  Identities=15%  Similarity=0.138  Sum_probs=83.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEecccC--cCChHHHHHHHHHhhhc-
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELTS--VENNNELRSLLVDISSK-  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~~--~~~~~~l~~l~~~~~~~-  279 (431)
                      +.+|||+||+|+||+++|+++|..+-+                        +++.+....  .-..+.++++....... 
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            459999999999999999999998754                        233333211  11345677665443322 


Q ss_pred             -------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHH
Q 035603          280 -------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAK  346 (431)
Q Consensus       280 -------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~  346 (431)
                                   +.-.....+.||..|+.    +++.+++|.+|++++.|.|.+++  |. ..+.|++|+.++..+.+.
T Consensus       104 ~~g~~KV~iI~~a~~m~~~AaNaLLKtLEE----Pp~~~~fiL~t~~~~~llpTI~S--RC-~~~~~~~~~~~~~~~~L~  176 (325)
T PRK06871        104 QQGGNKVVYIQGAERLTEAAANALLKTLEE----PRPNTYFLLQADLSAALLPTIYS--RC-QTWLIHPPEEQQALDWLQ  176 (325)
T ss_pred             ccCCceEEEEechhhhCHHHHHHHHHHhcC----CCCCeEEEEEECChHhCchHHHh--hc-eEEeCCCCCHHHHHHHHH
Confidence                         33456678899999984    45669999999999999999998  44 678999999888776665


Q ss_pred             Hh
Q 035603          347 NY  348 (431)
Q Consensus       347 ~~  348 (431)
                      ..
T Consensus       177 ~~  178 (325)
T PRK06871        177 AQ  178 (325)
T ss_pred             HH
Confidence            53

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

Probab=98.64  E-value=1.5e-06  Score=88.12  Aligned_cols=141  Identities=19%  Similarity=0.271  Sum_probs=93.6

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-----eEEecccCcCChHHH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-----VYDLELTSVENNNEL  269 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-----i~~l~~~~~~~~~~l  269 (431)
                      +.+-++..+++...+..++.+.         .|..+++|||||||||.+++-++.++.-.     ++.+||....+...+
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~---------~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i   89 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGE---------RPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQV   89 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCC---------CCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHH
Confidence            6777777888777766665531         23359999999999999999999988654     788999887655443


Q ss_pred             -HHHHHHh---hhc--------------------------c------cchhhHHHHHHHHhcCcccCCCCceEEEEecCC
Q 035603          270 -RSLLVDI---SSK--------------------------K------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNH  313 (431)
Q Consensus       270 -~~l~~~~---~~~--------------------------~------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~  313 (431)
                       .+++...   +..                          +      ......+-.|+..-+..    ...+.+|+.+|.
T Consensus        90 ~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~----~~~v~vi~i~n~  165 (366)
T COG1474          90 LSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN----KVKVSIIAVSND  165 (366)
T ss_pred             HHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc----ceeEEEEEEecc
Confidence             2333211   110                          0      01112333333332222    345789999986


Q ss_pred             C---CCCChhhhccCce-eEEEEcCCCCHHHHHHHHHHhhc
Q 035603          314 V---DKLDPALIRRGRM-DKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       314 ~---~~Ld~AllRpGRf-d~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .   +.|||-+.+  ++ ..+|.||+.+.++...|++....
T Consensus       166 ~~~~~~ld~rv~s--~l~~~~I~F~pY~a~el~~Il~~R~~  204 (366)
T COG1474         166 DKFLDYLDPRVKS--SLGPSEIVFPPYTAEELYDILRERVE  204 (366)
T ss_pred             HHHHHHhhhhhhh--ccCcceeeeCCCCHHHHHHHHHHHHH
Confidence            6   578898876  43 45599999999999999887764

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.61  E-value=6.4e-07  Score=96.42  Aligned_cols=69  Identities=33%  Similarity=0.403  Sum_probs=53.3

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ..|.  ..-.|.++++|++.++..+.+...+....        .+....+.++|+||||||||++++++|++++.+++.
T Consensus        72 ~pW~--eKyrP~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        72 EPWV--EKYKPETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             CchH--HHhCCCCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            4575  66789999999999988887665543321        123344569999999999999999999999987654

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

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.60  E-value=1.9e-06  Score=86.40  Aligned_cols=115  Identities=14%  Similarity=0.119  Sum_probs=83.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEecccC---cCChHHHHHHHHHhhh
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELTS---VENNNELRSLLVDISS  278 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~~---~~~~~~l~~l~~~~~~  278 (431)
                      .+.+|||+||+|+||+++|.++|..+-+                        +++.+....   .-..+.++++......
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~  102 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYE  102 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhh
Confidence            3458999999999999999999998744                        233332221   1134567766554433


Q ss_pred             c--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHH
Q 035603          279 K--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL  344 (431)
Q Consensus       279 ~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i  344 (431)
                      +              +.-....-+.||..|+.    +++..++|.+|++++.|.|.+++  |.. .+.|+.|+.++..+.
T Consensus       103 ~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEE----Pp~~t~fiL~t~~~~~lLpTIrS--RCq-~~~~~~~~~~~~~~~  175 (334)
T PRK07993        103 HARLGGAKVVWLPDAALLTDAAANALLKTLEE----PPENTWFFLACREPARLLATLRS--RCR-LHYLAPPPEQYALTW  175 (334)
T ss_pred             ccccCCceEEEEcchHhhCHHHHHHHHHHhcC----CCCCeEEEEEECChhhChHHHHh--ccc-cccCCCCCHHHHHHH
Confidence            2              33345678899999984    55679999999999999999998  553 689999998887776


Q ss_pred             HHH
Q 035603          345 AKN  347 (431)
Q Consensus       345 ~~~  347 (431)
                      +..
T Consensus       176 L~~  178 (334)
T PRK07993        176 LSR  178 (334)
T ss_pred             HHH
Confidence            644

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.59  E-value=1.6e-07  Score=89.91  Aligned_cols=96  Identities=18%  Similarity=0.285  Sum_probs=60.6

Q ss_pred             HHHHHHHHhhccceeeccCCccccCCcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEe
Q 035603          154 EGKAIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLF  233 (431)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~  233 (431)
                      .+.++..++++.+++....       .|.-.+..++.+|++.....+-.+.+...+..+...-   .    ....+++|+
T Consensus        40 ~~~~i~~~~~q~~~~~~~~-------~s~i~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~---~----~~~~~~~l~  105 (244)
T PRK07952         40 RSAALERENRAMKMQRTFN-------RSGIRPLHQNCSFENYRVECEGQMNALSKARQYVEEF---D----GNIASFIFS  105 (244)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------HcCCCccccCCccccccCCCchHHHHHHHHHHHHHhh---c----cCCceEEEE
Confidence            3445555556655544321       1111234456889998766544445556666665421   1    113589999


Q ss_pred             CCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          234 GPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       234 GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      ||||||||+|+.|||+++   |..++.++..++
T Consensus       106 G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l  138 (244)
T PRK07952        106 GKPGTGKNHLAAAICNELLLRGKSVLIITVADI  138 (244)
T ss_pred             CCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHH
Confidence            999999999999999988   667777765544

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

Probab=98.57  E-value=4.8e-07  Score=84.46  Aligned_cols=125  Identities=17%  Similarity=0.257  Sum_probs=76.7

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-C----CC
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-N----YD  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-~----~~  254 (431)
                      .|.  ....|.-+++|+|.++..+.+.-    +..       -|=-  ..+++.||||||||+-+.++|++| |    --
T Consensus        16 ~wV--eKYrP~~l~dIVGNe~tv~rl~v----ia~-------~gnm--P~liisGpPG~GKTTsi~~LAr~LLG~~~ke~   80 (333)
T KOG0991|consen   16 PWV--EKYRPSVLQDIVGNEDTVERLSV----IAK-------EGNM--PNLIISGPPGTGKTTSILCLARELLGDSYKEA   80 (333)
T ss_pred             hHH--HhhCchHHHHhhCCHHHHHHHHH----HHH-------cCCC--CceEeeCCCCCchhhHHHHHHHHHhChhhhhH
Confidence            364  67789999999999988776532    221       1211  269999999999999999999976 3    23


Q ss_pred             eEEecccCcCChHHHHHH---HHHhhhc-----------cc---chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          255 VYDLELTSVENNNELRSL---LVDISSK-----------KK---KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l---~~~~~~~-----------~~---~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                      +.++|.++-.+-+-++.-   |.+..-.           +.   ........|-..|+-..+    ..-+..++|..+++
T Consensus        81 vLELNASdeRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS~----ttRFalaCN~s~KI  156 (333)
T KOG0991|consen   81 VLELNASDERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYSN----TTRFALACNQSEKI  156 (333)
T ss_pred             hhhccCccccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHHHHcc----cchhhhhhcchhhh
Confidence            667888876666656543   3222111           11   112222333334442222    23466778887777


Q ss_pred             Chhhhc
Q 035603          318 DPALIR  323 (431)
Q Consensus       318 d~AllR  323 (431)
                      -..+..
T Consensus       157 iEPIQS  162 (333)
T KOG0991|consen  157 IEPIQS  162 (333)
T ss_pred             hhhHHh
Confidence            666655

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.56  E-value=3.3e-06  Score=84.00  Aligned_cols=115  Identities=15%  Similarity=0.187  Sum_probs=80.7

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC---------------------CeEEec--ccCcC-------ChHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY---------------------DVYDLE--LTSVE-------NNNELRSLLVD  275 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~---------------------~i~~l~--~~~~~-------~~~~l~~l~~~  275 (431)
                      .+.++||+||+|+||+++|.++|..+-+                     +++.++  ...-.       .-+.++++...
T Consensus        25 l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~  104 (319)
T PRK08769         25 LGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQK  104 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHH
Confidence            3458999999999999999999987643                     233331  11100       13455655543


Q ss_pred             hhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHH
Q 035603          276 ISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAF  341 (431)
Q Consensus       276 ~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r  341 (431)
                      ....              +.-.....+.||..|+.    +.+++++|.+|++++.|.|.+++  |. ..|.|+.|+.++.
T Consensus       105 ~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEE----Pp~~~~fiL~~~~~~~lLpTIrS--RC-q~i~~~~~~~~~~  177 (319)
T PRK08769        105 LALTPQYGIAQVVIVDPADAINRAACNALLKTLEE----PSPGRYLWLISAQPARLPATIRS--RC-QRLEFKLPPAHEA  177 (319)
T ss_pred             HhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhC----CCCCCeEEEEECChhhCchHHHh--hh-eEeeCCCcCHHHH
Confidence            3322              33345678889999884    45568999999999999999998  44 5789999998877


Q ss_pred             HHHHHH
Q 035603          342 KVLAKN  347 (431)
Q Consensus       342 ~~i~~~  347 (431)
                      .+.+..
T Consensus       178 ~~~L~~  183 (319)
T PRK08769        178 LAWLLA  183 (319)
T ss_pred             HHHHHH
Confidence            766654

>smart00350 MCM minichromosome maintenance proteins

Probab=98.55  E-value=2.5e-07  Score=98.06  Aligned_cols=119  Identities=19%  Similarity=0.239  Sum_probs=75.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe----cccCcCChHHHHHH-----------HHHhhhc-------ccchhhH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL----ELTSVENNNELRSL-----------LVDISSK-------KKKSNVT  286 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l----~~~~~~~~~~l~~l-----------~~~~~~~-------~~~~~~~  286 (431)
                      .+||+|+||||||++++++++.+....+..    +...+.. ..++.-           +..+.+.       +......
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~-~~~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~l~~~~  316 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTA-AVTRDPETREFTLEGGALVLADNGVCCIDEFDKMDDSD  316 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccc-cceEccCcceEEecCccEEecCCCEEEEechhhCCHHH
Confidence            599999999999999999999876544432    1111110 111110           0011111       2234456


Q ss_pred             HHHHHHHhcCc---------ccCCCCceEEEEecCCCC-------------CCChhhhccCceeEEEE-cCCCCHHHHHH
Q 035603          287 LSGLLNCIGGL---------WSTCGGERIIVFTTNHVD-------------KLDPALIRRGRMDKHIE-MPYCCFEAFKV  343 (431)
Q Consensus       287 ~s~lL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~AllRpGRfd~~I~-~~~p~~~~r~~  343 (431)
                      .+.|+..|+.-         ...-....-||+|+|..+             .|++++++  |||.... +++|+.+....
T Consensus       317 q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~  394 (509)
T smart00350      317 RTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRE  394 (509)
T ss_pred             HHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHH
Confidence            67777777432         111223467999999763             59999999  9998655 58899999999


Q ss_pred             HHHHhhc
Q 035603          344 LAKNYLE  350 (431)
Q Consensus       344 i~~~~l~  350 (431)
                      |+++.+.
T Consensus       395 i~~~i~~  401 (509)
T smart00350      395 LAKHVVD  401 (509)
T ss_pred             HHHHHHH
Confidence            9887653

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=8.1e-07  Score=88.78  Aligned_cols=115  Identities=17%  Similarity=0.261  Sum_probs=81.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC-------------------------CeEEecccCc----------CChHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY-------------------------DVYDLELTSV----------ENNNELR  270 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------------------~i~~l~~~~~----------~~~~~l~  270 (431)
                      .+.+|||+||+|+|||++|+++|+.+.+                         +++.++...-          -.-+.++
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            4568999999999999999999998643                         3455554210          1245677


Q ss_pred             HHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCC
Q 035603          271 SLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYC  336 (431)
Q Consensus       271 ~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p  336 (431)
                      ++.......              +.-+....+.||..++...    .+..+|++|++++.+.|.+.+  |. ..+.|++|
T Consensus       100 ~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~----~~~~~Ilvth~~~~ll~ti~S--Rc-~~~~~~~~  172 (325)
T PRK08699        100 EIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPP----PQVVFLLVSHAADKVLPTIKS--RC-RKMVLPAP  172 (325)
T ss_pred             HHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCc----CCCEEEEEeCChHhChHHHHH--Hh-hhhcCCCC
Confidence            765544332              3334567788888888652    337788899999999999988  44 67889999


Q ss_pred             CHHHHHHHHHH
Q 035603          337 CFEAFKVLAKN  347 (431)
Q Consensus       337 ~~~~r~~i~~~  347 (431)
                      +.++..+.+..
T Consensus       173 ~~~~~~~~L~~  183 (325)
T PRK08699        173 SHEEALAYLRE  183 (325)
T ss_pred             CHHHHHHHHHh
Confidence            98887665543

>PRK04132 replication factor C small subunit; Provisional

Probab=98.53  E-value=1.2e-06  Score=96.70  Aligned_cols=112  Identities=13%  Similarity=0.101  Sum_probs=87.7

Q ss_pred             EEeC--CCCCcHHHHHHHHHHHc-----CCCeEEecccCcCChHHHHHHHHHhhhc----------------ccchhhHH
Q 035603          231 LLFG--PPGTGKSTMIAAMANCL-----NYDVYDLELTSVENNNELRSLLVDISSK----------------KKKSNVTL  287 (431)
Q Consensus       231 LL~G--PPGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l~~l~~~~~~~----------------~~~~~~~~  287 (431)
                      +..|  |++.||||+|+|||+++     +.+++.+|+++..+.+.+++++......                +.-+....
T Consensus       568 ~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~AQ  647 (846)
T PRK04132        568 FIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQ  647 (846)
T ss_pred             hhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHHHH
Confidence            5568  99999999999999998     5689999999976777888877553321                33345577


Q ss_pred             HHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          288 SGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       288 s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      +.|+..|+..    .+.+.+|++||.+..+.++|++  |. ..+.|+.|+.++....++...
T Consensus       648 nALLk~lEep----~~~~~FILi~N~~~kIi~tIrS--RC-~~i~F~~ls~~~i~~~L~~I~  702 (846)
T PRK04132        648 QALRRTMEMF----SSNVRFILSCNYSSKIIEPIQS--RC-AIFRFRPLRDEDIAKRLRYIA  702 (846)
T ss_pred             HHHHHHhhCC----CCCeEEEEEeCChhhCchHHhh--hc-eEEeCCCCCHHHHHHHHHHHH
Confidence            8888888853    3458899999999999999998  54 688999999877776665543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=1.2e-06  Score=87.21  Aligned_cols=115  Identities=12%  Similarity=0.128  Sum_probs=83.3

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC-----------------------CeEEecccC---cCChHHHHHHHHHhhhc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY-----------------------DVYDLELTS---VENNNELRSLLVDISSK  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~-----------------------~i~~l~~~~---~~~~~~l~~l~~~~~~~  279 (431)
                      .+.+|||+||.|+||+++|+++|..+-+                       +++.+....   .-..+.++.+.......
T Consensus        24 l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~~  103 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQES  103 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhhC
Confidence            3458999999999999999999987643                       344443321   11345666654333221


Q ss_pred             --------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          280 --------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       280 --------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                                    +.-....-+.||..++.    +++++++|++|++++.|.|.+++  |. ..+.|+.|+.++..+.+
T Consensus       104 ~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEE----Pp~~t~fiL~t~~~~~lLpTI~S--RC-q~~~~~~~~~~~~~~~L  176 (319)
T PRK06090        104 SQLNGYRLFVIEPADAMNESASNALLKTLEE----PAPNCLFLLVTHNQKRLLPTIVS--RC-QQWVVTPPSTAQAMQWL  176 (319)
T ss_pred             cccCCceEEEecchhhhCHHHHHHHHHHhcC----CCCCeEEEEEECChhhChHHHHh--cc-eeEeCCCCCHHHHHHHH
Confidence                          33345678889999984    45669999999999999999998  44 58899999988877766


Q ss_pred             HH
Q 035603          346 KN  347 (431)
Q Consensus       346 ~~  347 (431)
                      ..
T Consensus       177 ~~  178 (319)
T PRK06090        177 KG  178 (319)
T ss_pred             HH
Confidence            54

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.53  E-value=1.9e-07  Score=95.08  Aligned_cols=70  Identities=17%  Similarity=0.259  Sum_probs=51.2

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -|+|+++.|+.+.-.+..-......-..++ -..|+++||+||||||||++|+++|..++.+++.++.+.+
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            378999999998766654322211111111 1235899999999999999999999999999999997643

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.

>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=98.52  E-value=2e-07  Score=86.42  Aligned_cols=46  Identities=30%  Similarity=0.544  Sum_probs=35.4

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      |.+|.|++..|..+.-...            |   ..++||+||||||||++|++++.-|.
T Consensus         2 f~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lLP   47 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLLP   47 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS-
T ss_pred             hhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhCC
Confidence            7899999999998854332            3   35899999999999999999998653

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.

>PRK08116 hypothetical protein; Validated

Probab=98.51  E-value=7.5e-07  Score=86.73  Aligned_cols=139  Identities=18%  Similarity=0.276  Sum_probs=78.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCC-
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVEN-  265 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-  265 (431)
                      .+|++....++... ....+..+..+   |.... ...+|++|+||||||||.|+.|||+++   +.+++.++..++.. 
T Consensus        82 ~tFdnf~~~~~~~~-a~~~a~~y~~~---~~~~~-~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~  156 (268)
T PRK08116         82 STFENFLFDKGSEK-AYKIARKYVKK---FEEMK-KENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNR  156 (268)
T ss_pred             cchhcccCChHHHH-HHHHHHHHHHH---HHhhc-cCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH
Confidence            45666654444322 33444444432   11111 234689999999999999999999986   67777777654310 


Q ss_pred             ---------hHHHHHHHHHhhhc----------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCC-C----CCChhh
Q 035603          266 ---------NNELRSLLVDISSK----------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV-D----KLDPAL  321 (431)
Q Consensus       266 ---------~~~l~~l~~~~~~~----------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~-~----~Ld~Al  321 (431)
                               ......++......          ...+......|.+.+|....   .+..+|+|||.+ +    .+++.+
T Consensus       157 i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~---~~~~~IiTsN~~~~eL~~~~~~ri  233 (268)
T PRK08116        157 IKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERDTEWAREKVYNIIDSRYR---KGLPTIVTTNLSLEELKNQYGKRI  233 (268)
T ss_pred             HHHHHhccccccHHHHHHHhcCCCEEEEecccCCCCCHHHHHHHHHHHHHHHH---CCCCEEEECCCCHHHHHHHHhHHH
Confidence                     00011111111111          22334556677777776532   225688888865 2    256677


Q ss_pred             hccCce---eEEEEcCCCCH
Q 035603          322 IRRGRM---DKHIEMPYCCF  338 (431)
Q Consensus       322 lRpGRf---d~~I~~~~p~~  338 (431)
                      ..  |+   -..|.++-++.
T Consensus       234 ~s--Rl~e~~~~v~~~g~d~  251 (268)
T PRK08116        234 YD--RILEMCTPVENEGKSY  251 (268)
T ss_pred             HH--HHHHcCEEEEeeCcCh
Confidence            76  53   34566666664

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

Probab=98.49  E-value=9.4e-07  Score=90.80  Aligned_cols=117  Identities=21%  Similarity=0.290  Sum_probs=80.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec-ccC---cCC---hHHHHHHHHHhhhc--------------------
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE-LTS---VEN---NNELRSLLVDISSK--------------------  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~-~~~---~~~---~~~l~~l~~~~~~~--------------------  279 (431)
                      -.++||+||||+|||.||..||...++||+.+- ..+   +..   ...+.++|.++..+                    
T Consensus       538 lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLiD~vpIG  617 (744)
T KOG0741|consen  538 LVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLLDYVPIG  617 (744)
T ss_pred             ceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhhcccccC
Confidence            357999999999999999999999999999763 222   221   23478888888766                    


Q ss_pred             ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh-hhhccCceeEEEEcCCCCH-HHHHHHHH
Q 035603          280 KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP-ALIRRGRMDKHIEMPYCCF-EAFKVLAK  346 (431)
Q Consensus       280 ~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~-AllRpGRfd~~I~~~~p~~-~~r~~i~~  346 (431)
                      ...++.++..|+-.+..... .|...+|++||...+-|.. .++.  +|+..|++|..+. ++...++.
T Consensus       618 PRfSN~vlQaL~VllK~~pp-kg~kLli~~TTS~~~vL~~m~i~~--~F~~~i~Vpnl~~~~~~~~vl~  683 (744)
T KOG0741|consen  618 PRFSNLVLQALLVLLKKQPP-KGRKLLIFGTTSRREVLQEMGILD--CFSSTIHVPNLTTGEQLLEVLE  683 (744)
T ss_pred             chhhHHHHHHHHHHhccCCC-CCceEEEEecccHHHHHHHcCHHH--hhhheeecCccCchHHHHHHHH
Confidence            34566677777777776532 3334566667766544432 3445  7899999998765 45444443

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.48  E-value=7.1e-06  Score=82.16  Aligned_cols=145  Identities=17%  Similarity=0.178  Sum_probs=94.0

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChHH
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNNE  268 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~  268 (431)
                      |++++|.....+.+.+.+......           ...+||+|+|||||+++|++|-....   .+|+.+||..+.. ..
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~-----------~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~-~~   72 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPL-----------DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-NL   72 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCH-HH
Confidence            677889888888888877766543           45799999999999999999976553   5899999998753 33


Q ss_pred             HHH-HHHHhh------------------hc-------ccchhhHHHHHHHHhcCcc-cCCC------CceEEEEecCCC-
Q 035603          269 LRS-LLVDIS------------------SK-------KKKSNVTLSGLLNCIGGLW-STCG------GERIIVFTTNHV-  314 (431)
Q Consensus       269 l~~-l~~~~~------------------~~-------~~~~~~~~s~lL~~ldg~~-~~~~------~~~ivI~TTN~~-  314 (431)
                      +.. +|....                  +.       +.-+......|++.++.-. ...+      .++-||+||+.. 
T Consensus        73 ~~~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l  152 (326)
T PRK11608         73 LDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADL  152 (326)
T ss_pred             HHHHHccccccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhH
Confidence            333 332110                  00       2223345567777775321 1111      135677777653 


Q ss_pred             ------CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 ------DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 ------~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                            ..+.+.|..  || ...|.+|+..  .+....|+.+|+.
T Consensus       153 ~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~  195 (326)
T PRK11608        153 PAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAI  195 (326)
T ss_pred             HHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHH
Confidence                  356677777  77 5578887764  3455667777764

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.44  E-value=6.8e-06  Score=88.75  Aligned_cols=50  Identities=38%  Similarity=0.456  Sum_probs=40.9

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .-+++++|.++.++.+...+.               .++.++|+||||||||++++++|+.++.+
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~---------------~~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAK---------------QKRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHH---------------cCCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            568899999988877655442               13489999999999999999999999765

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

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

Probab=98.44  E-value=3.6e-07  Score=93.11  Aligned_cols=83  Identities=18%  Similarity=0.232  Sum_probs=57.7

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCC-CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-------C
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA-WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-------N  265 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-------~  265 (431)
                      .|+|+++.|+.+...+.........-.....+ .+.++||+||||||||++|++||..++.+++.++++.+.       +
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            38999999999877664322211000001111 257899999999999999999999999999999986442       1


Q ss_pred             -hHHHHHHHHHh
Q 035603          266 -NNELRSLLVDI  276 (431)
Q Consensus       266 -~~~l~~l~~~~  276 (431)
                       ...++.++..+
T Consensus        96 ~e~~ir~L~~~A  107 (443)
T PRK05201         96 VESIIRDLVEIA  107 (443)
T ss_pred             HHHHHHHHHHHH
Confidence             34566666665

>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=98.43  E-value=4.8e-06  Score=76.51  Aligned_cols=121  Identities=18%  Similarity=0.337  Sum_probs=78.5

Q ss_pred             cchhHHHHHHHhcCCCCCCCCccceEecCC-----------Cce------------e---eeecCeEEEEEEee-----c
Q 035603           64 RNKAYSEIQSYLSGREETSLHASRFKADDY-----------EEV------------S---DEYKGVRVWWVLGK-----K  112 (431)
Q Consensus        64 ~~~~y~~~~~yls~~~~~~~~~~~l~~~~~-----------~~~------------~---d~f~g~~~~w~~~~-----~  112 (431)
                      .|++|+|++.||++++ ....++++.+...           .+.            .   -...|.++.|+.+.     +
T Consensus        34 ~D~~Y~~lm~Wls~q~-~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~G~h~F~y~G~~~~~~R  112 (187)
T PF08740_consen   34 DDEAYDWLMRWLSSQP-FSKRSRHLSATTRSNSSWDDDESDDEDSWDTNTSDDKKKPIRFTPSPGTHWFWYKGRWFWFSR  112 (187)
T ss_pred             CCHHHHHHHHHHhhCC-cccccceeEEEeecccccccccccccchhccccccCCcCCeEEEeCCCCEEEEECCEEEEEEE
Confidence            6999999999999999 5556777663110           000            0   11256677765432     2


Q ss_pred             cCCCCceeecCCCCCceEEEEEEeccchhhhhhhhHHHHHHHHHHHHHHhhccc--eeeccCCccccCCcceeeeccCCC
Q 035603          113 VPRTPVVYFYPGSYDERHYTLTFHKRYRELITGEYVNQVLEEGKAIAVRNRQRK--LYKNVPCQAWYEKKWSHVYFEHPA  190 (431)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~~yl~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~w~~~~~~~p~  190 (431)
                      ..+....+...+ .+...++|++..+.++.     |+.+|++|++...++.+.+  ||...+.+    ..|+.+.-.+++
T Consensus       113 ~~~~~~~~~~~~-~~~e~l~l~~lg~s~~~-----l~~ll~ear~~~~~~~~~~t~Iy~~~~~~----~~W~~~~~r~~R  182 (187)
T PF08740_consen  113 QRESNSYNSWTG-APDETLTLSCLGRSPKP-----LKDLLEEAREYYLKKQKGKTTIYRADGSE----YRWRRVASRPKR  182 (187)
T ss_pred             EeccccccccCC-CCceEEEEEEecCCHHH-----HHHHHHHHHHHHHHhcCCcEEEEeCCCCC----CCCcCCCCcCCC
Confidence            222222221111 22467889888887765     7899999999998876655  78876432    269988878889


Q ss_pred             Ccccc
Q 035603          191 TFDTL  195 (431)
Q Consensus       191 ~f~~l  195 (431)
                      ++++|
T Consensus       183 plsTV  187 (187)
T PF08740_consen  183 PLSTV  187 (187)
T ss_pred             CCCCC
Confidence            99886

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.43  E-value=2.1e-06  Score=92.51  Aligned_cols=120  Identities=16%  Similarity=0.171  Sum_probs=81.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCcC----ChHHHHHHHH------------Hhhhc-------ccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSVE----NNNELRSLLV------------DISSK-------KKK  282 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~~----~~~~l~~l~~------------~~~~~-------~~~  282 (431)
                      .++||.|+||||||+++++++..++.  +|+.+......    +.-.+...+.            .+.+.       +..
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            48999999999999999999998865  47777642211    1111111111            11100       334


Q ss_pred             hhhHHHHHHHHhcCc---------ccCCCCceEEEEecCCCC---CCChhhhccCceeEEEEcCCC-CHHHHHHHHHHhh
Q 035603          283 SNVTLSGLLNCIGGL---------WSTCGGERIIVFTTNHVD---KLDPALIRRGRMDKHIEMPYC-CFEAFKVLAKNYL  349 (431)
Q Consensus       283 ~~~~~s~lL~~ldg~---------~~~~~~~~ivI~TTN~~~---~Ld~AllRpGRfd~~I~~~~p-~~~~r~~i~~~~l  349 (431)
                      ...+.+.|++.|+.-         .........||+|+|..+   .|+++|+.  ||+.+|.+.++ +.++|.+|++.++
T Consensus        97 ~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--Rf~l~v~~~~~~~~~er~eil~~~~  174 (589)
T TIGR02031        97 DDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSLEDVASQDLRVEIVRRER  174 (589)
T ss_pred             CHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeecCCCCCHHHHHHHHHHHH
Confidence            566788888888621         111223468889999876   79999999  99999998875 5677888888765

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.43  E-value=6.5e-07  Score=88.73  Aligned_cols=69  Identities=26%  Similarity=0.420  Sum_probs=48.7

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      ..+|+++...+.-+..+.+.+..|+..   |.. | +..+|++|+||||||||.|+.|||+++   |.++..+..+.
T Consensus       123 ~atf~~~~~~~~~~~~~~~~~~~fi~~---~~~-~-~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~  194 (306)
T PRK08939        123 QASLADIDLDDRDRLDALMAALDFLEA---YPP-G-EKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE  194 (306)
T ss_pred             cCcHHHhcCCChHHHHHHHHHHHHHHH---hhc-c-CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHH
Confidence            467888876664455555555666642   111 1 346799999999999999999999988   67776665554

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

Probab=98.39  E-value=2e-05  Score=76.07  Aligned_cols=64  Identities=27%  Similarity=0.348  Sum_probs=45.5

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCcC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSVE  264 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~~  264 (431)
                      +.++|+.+.++.- -.+...++.+       .-..|++||-||||||||-||-+|+.+||.  ||+-+..+++.
T Consensus        38 ~g~vGQ~~AReAa-giivdlik~K-------kmaGravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSEvy  103 (456)
T KOG1942|consen   38 AGFVGQENAREAA-GIIVDLIKSK-------KMAGRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVY  103 (456)
T ss_pred             cccccchhhhhhh-hHHHHHHHhh-------hccCcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchhhh
Confidence            4467887777653 2233334332       234689999999999999999999999974  66666666653

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.39  E-value=1.2e-05  Score=87.75  Aligned_cols=147  Identities=20%  Similarity=0.163  Sum_probs=92.5

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCCh
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENN  266 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~  266 (431)
                      .+|++++|.....+.+.+.+......           ...+||+|+|||||+++|++|.+...   -+|+.+||..+...
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~-----------~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~  390 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKS-----------SFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDE  390 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCc-----------CCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChH
Confidence            46888888888877777777665542           35699999999999999999988754   58999999988543


Q ss_pred             HHHHHHHHHhh---h-----c--------------ccchhhHHHHHHHHhcCcccC-CCC------ceEEEEecCCCCCC
Q 035603          267 NELRSLLVDIS---S-----K--------------KKKSNVTLSGLLNCIGGLWST-CGG------ERIIVFTTNHVDKL  317 (431)
Q Consensus       267 ~~l~~l~~~~~---~-----~--------------~~~~~~~~s~lL~~ldg~~~~-~~~------~~ivI~TTN~~~~L  317 (431)
                      .--..+|....   .     .              +.-.......|+..++.-.-. .++      .+-||+|||..  +
T Consensus       391 ~~~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~--l  468 (638)
T PRK11388        391 ALAEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTAD--L  468 (638)
T ss_pred             HHHHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCC--H
Confidence            22234554220   0     0              223344556777777532111 111      35688888753  1


Q ss_pred             ChhhhccCce---------eEEEEcCCCCH--HHHHHHHHHhhc
Q 035603          318 DPALIRRGRM---------DKHIEMPYCCF--EAFKVLAKNYLE  350 (431)
Q Consensus       318 d~AllRpGRf---------d~~I~~~~p~~--~~r~~i~~~~l~  350 (431)
                       ..+...|+|         ...|.+|+...  +....|+..|+.
T Consensus       469 -~~~~~~~~f~~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~  511 (638)
T PRK11388        469 -AMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLR  511 (638)
T ss_pred             -HHHHhcCCChHHHhhhhceeEEeCCChhhhhhHHHHHHHHHHH
Confidence             233444555         45666666542  455667777764

>PRK08181 transposase; Validated

Probab=98.38  E-value=4.6e-06  Score=81.15  Aligned_cols=36  Identities=42%  Similarity=0.629  Sum_probs=29.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      +.+++|+||||||||.|+.|||+++   |+.++.++..+
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~  144 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTD  144 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHH
Confidence            4689999999999999999999754   66676666544

>PHA02624 large T antigen; Provisional

Probab=98.38  E-value=6.4e-06  Score=87.10  Aligned_cols=110  Identities=19%  Similarity=0.233  Sum_probs=70.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHH-------HHHHhhhc--------ccchhhHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRS-------LLVDISSK--------KKKSNVTL  287 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~-------l~~~~~~~--------~~~~~~~~  287 (431)
                      |+|.++.+|||||||||||+++.+|++.++-.++.++.+.-...-.|.-       +|.++...        .+..-..+
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~ks~FwL~pl~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl  506 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLNFELGCAIDQFMVVFEDVKGQPADNKDLPSGQGMNNL  506 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcchhHHHhhhhhhceEEEeeeccccccccccCCcccccchh
Confidence            6888999999999999999999999999966666676444222212221       12222211        01112235


Q ss_pred             HHHHHHhcCcccC-----CCCce-----EEEEecCCCCCCChhhhccCceeEEEEcCC
Q 035603          288 SGLLNCIGGLWST-----CGGER-----IIVFTTNHVDKLDPALIRRGRMDKHIEMPY  335 (431)
Q Consensus       288 s~lL~~ldg~~~~-----~~~~~-----ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~  335 (431)
                      .-|-|.|||-..-     ....+     -.|.|||. ..||..+.-  ||-..|.|..
T Consensus       507 ~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~--Rf~~~~~F~~  561 (647)
T PHA02624        507 DNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKA--RFAKVLDFKP  561 (647)
T ss_pred             hHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHH--HHHHhccccc
Confidence            6788899986111     00111     26778887 578888887  8988888764

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.36  E-value=1.4e-05  Score=85.42  Aligned_cols=148  Identities=20%  Similarity=0.186  Sum_probs=94.4

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCC
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVEN  265 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  265 (431)
                      ..+|+.++|.....+.+.+.+......           ...+||+|+|||||+++|++|....   +.+|+.+||..+..
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~a~~-----------~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~  260 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVVARS-----------NSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE  260 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHHhCc-----------CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH
Confidence            367899999999988888877766542           4579999999999999999999875   46899999998743


Q ss_pred             hHHHHH-HHHHhh------------------hc-------ccchhhHHHHHHHHhcCcc-cCCCC------ceEEEEecC
Q 035603          266 NNELRS-LLVDIS------------------SK-------KKKSNVTLSGLLNCIGGLW-STCGG------ERIIVFTTN  312 (431)
Q Consensus       266 ~~~l~~-l~~~~~------------------~~-------~~~~~~~~s~lL~~ldg~~-~~~~~------~~ivI~TTN  312 (431)
                       ..+.. +|....                  +.       +.-+......|++.++.-. ...++      .+-+|+|||
T Consensus       261 -~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~  339 (534)
T TIGR01817       261 -TLLESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATN  339 (534)
T ss_pred             -HHHHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCC
Confidence             33332 332110                  00       2223445667777775321 11111      256777776


Q ss_pred             CC-------CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          313 HV-------DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       313 ~~-------~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                      ..       ..+.+.|..  |+ ...|.+|+..  .+....|+..|+.
T Consensus       340 ~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLreR~eDi~~L~~~~l~  385 (534)
T TIGR01817       340 RDLEEAVAKGEFRADLYY--RINVVPIFLPPLRERREDIPLLAEAFLE  385 (534)
T ss_pred             CCHHHHHHcCCCCHHHHH--HhcCCeeeCCCcccccccHHHHHHHHHH
Confidence            42       233344444  44 3467777665  4566677777764

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.31  E-value=7.3e-06  Score=82.17  Aligned_cols=141  Identities=19%  Similarity=0.175  Sum_probs=85.3

Q ss_pred             ccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHH-H
Q 035603          196 AMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELR-S  271 (431)
Q Consensus       196 ~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~-~  271 (431)
                      +|.....+.+.+.+.....           ....+||+|+|||||+++|++|-...   +.+|+.+||..+.. +.+. .
T Consensus         2 iG~S~~m~~~~~~~~~~a~-----------~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~-~~l~~~   69 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAP-----------LDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSE-NLLDSE   69 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCCh-HHHHHH
Confidence            4555556666666654443           24579999999999999999997655   36899999998743 2333 2


Q ss_pred             HHHHh------------------hhc-------ccchhhHHHHHHHHhcCcc-cC------CCCceEEEEecCCC-----
Q 035603          272 LLVDI------------------SSK-------KKKSNVTLSGLLNCIGGLW-ST------CGGERIIVFTTNHV-----  314 (431)
Q Consensus       272 l~~~~------------------~~~-------~~~~~~~~s~lL~~ldg~~-~~------~~~~~ivI~TTN~~-----  314 (431)
                      +|...                  .+.       +.-+......|+..|+.-. ..      ...++-||+|||..     
T Consensus        70 lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~  149 (329)
T TIGR02974        70 LFGHEAGAFTGAQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALA  149 (329)
T ss_pred             HhccccccccCcccccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHh
Confidence            33211                  100       2223445666777774321 00      11235677777753     


Q ss_pred             --CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 --DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 --~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                        ..+.+.|..  |+ ...|++|+..  .+....|+..|+.
T Consensus       150 ~~g~fr~dL~~--rl~~~~i~lPpLReR~eDI~~L~~~fl~  188 (329)
T TIGR02974       150 AEGRFRADLLD--RLAFDVITLPPLRERQEDIMLLAEHFAI  188 (329)
T ss_pred             hcCchHHHHHH--HhcchhcCCCchhhhhhhHHHHHHHHHH
Confidence              245567776  77 3467777665  3556667777664

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

>PRK12377 putative replication protein; Provisional

Probab=98.29  E-value=3e-06  Score=81.43  Aligned_cols=66  Identities=18%  Similarity=0.300  Sum_probs=42.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .+|++.....+-.+.+...+..+...   |..    ...+++|+||||||||+|+.|||+++   |..++.++..+
T Consensus        71 ~tFdnf~~~~~~~~~a~~~a~~~a~~---~~~----~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~  139 (248)
T PRK12377         71 CSFANYQVQNDGQRYALSQAKSIADE---LMT----GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPD  139 (248)
T ss_pred             CCcCCcccCChhHHHHHHHHHHHHHH---HHh----cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHH
Confidence            46777654433333344444444332   111    23689999999999999999999987   55666655544

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.28  E-value=7.6e-06  Score=82.75  Aligned_cols=147  Identities=18%  Similarity=0.199  Sum_probs=94.6

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC------
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS------  262 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~------  262 (431)
                      ...|.-++|++.+|..|.-....             |.-.|+|+-|+.|||||+++||||..|.--.....+..      
T Consensus        13 ~~pf~aivGqd~lk~aL~l~av~-------------P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~   79 (423)
T COG1239          13 NLPFTAIVGQDPLKLALGLNAVD-------------PQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDD   79 (423)
T ss_pred             ccchhhhcCchHHHHHHhhhhcc-------------cccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCC
Confidence            45678889999999887543221             22358999999999999999999998753221112110      


Q ss_pred             --------------------------------cCChHH------HHHHHHHhhhc-------------------ccchhh
Q 035603          263 --------------------------------VENNNE------LRSLLVDISSK-------------------KKKSNV  285 (431)
Q Consensus       263 --------------------------------~~~~~~------l~~l~~~~~~~-------------------~~~~~~  285 (431)
                                                      ..+.+.      +.+.+......                   +.-...
T Consensus        80 P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~  159 (423)
T COG1239          80 PEEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDH  159 (423)
T ss_pred             hhhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHH
Confidence                                            001110      11111110000                   223456


Q ss_pred             HHHHHHHHh---------cCcccCCCCceEEEEecCCC-CCCChhhhccCceeEEEEcCCCC-HHHHHHHHHHhhc
Q 035603          286 TLSGLLNCI---------GGLWSTCGGERIIVFTTNHV-DKLDPALIRRGRMDKHIEMPYCC-FEAFKVLAKNYLE  350 (431)
Q Consensus       286 ~~s~lL~~l---------dg~~~~~~~~~ivI~TTN~~-~~Ld~AllRpGRfd~~I~~~~p~-~~~r~~i~~~~l~  350 (431)
                      ....||+.+         +|+.-...-++++|+|+|.- ..|-|-|+.  ||..+|.+.+|. .++|.++.++-+.
T Consensus       160 lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~~rv~Ii~r~~~  233 (423)
T COG1239         160 LVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLEERVEIIRRRLA  233 (423)
T ss_pred             HHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHHHHHHHHHHHHH
Confidence            677777766         34444445568999999965 478899999  999999999985 6777777776543

>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=98.25  E-value=4.9e-05  Score=72.34  Aligned_cols=120  Identities=21%  Similarity=0.202  Sum_probs=71.0

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc---------ccchhhHHHHH---HHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK---------KKKSNVTLSGL---LNC  293 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~s~l---L~~  293 (431)
                      ...|-.++||+|||||.+++++|..+|..++.+++++..+-..+.++|......         +.-+..++|.+   +..
T Consensus        31 ~~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~~~GaW~cfdefnrl~~~vLS~i~~~i~~  110 (231)
T PF12774_consen   31 LNLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLAQSGAWLCFDEFNRLSEEVLSVISQQIQS  110 (231)
T ss_dssp             TTTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHHHHT-EEEEETCCCSSHHHHHHHHHHHHH
T ss_pred             cCCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHhhcCchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            346778999999999999999999999999999999988888899998776655         22222333322   222


Q ss_pred             h-cCcccC------------CCCceEEEEecC----CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          294 I-GGLWST------------CGGERIIVFTTN----HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       294 l-dg~~~~------------~~~~~ivI~TTN----~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      + +.+...            -....-++.|.|    ....||+.|..   +=+.|.|..||.....++.-.-
T Consensus       111 i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~---lFRpvam~~PD~~~I~ei~L~s  179 (231)
T PF12774_consen  111 IQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKA---LFRPVAMMVPDLSLIAEILLLS  179 (231)
T ss_dssp             HHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCT---TEEEEE--S--HHHHHHHHHHC
T ss_pred             HHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHH---HhheeEEeCCCHHHHHHHHHHH
Confidence            2 111100            001123555666    33578888865   3378999999988766655433

>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=98.24  E-value=4.2e-06  Score=75.78  Aligned_cols=119  Identities=18%  Similarity=0.174  Sum_probs=69.6

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChHHHHH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNNELRS  271 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~  271 (431)
                      |+|.+...+.+++.+......           +..+||+|++||||+.+|++|-+...   .+|+.+||+.+..+.--..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~-----------~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~   69 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASS-----------DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESE   69 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTS-----------TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhCC-----------CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhh
Confidence            356666666666666555543           46899999999999999999998654   5899999998843332344


Q ss_pred             HHHHhhh--------c-----------------ccchhhHHHHHHHHhcCcc-cCCC------CceEEEEecCCCCCCCh
Q 035603          272 LLVDISS--------K-----------------KKKSNVTLSGLLNCIGGLW-STCG------GERIIVFTTNHVDKLDP  319 (431)
Q Consensus       272 l~~~~~~--------~-----------------~~~~~~~~s~lL~~ldg~~-~~~~------~~~ivI~TTN~~~~Ld~  319 (431)
                      +|.....        +                 +.-+......|++.|+.-. ...+      -++-||+|||..  | .
T Consensus        70 LFG~~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~--l-~  146 (168)
T PF00158_consen   70 LFGHEKGAFTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKD--L-E  146 (168)
T ss_dssp             HHEBCSSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS---H-H
T ss_pred             hhccccccccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcC--H-H
Confidence            5543211        0                 2334556677888876311 1111      146688888752  2 2


Q ss_pred             hhhccCce
Q 035603          320 ALIRRGRM  327 (431)
Q Consensus       320 AllRpGRf  327 (431)
                      .++..|+|
T Consensus       147 ~~v~~g~f  154 (168)
T PF00158_consen  147 ELVEQGRF  154 (168)
T ss_dssp             HHHHTTSS
T ss_pred             HHHHcCCC
Confidence            34445555

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 ....

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=98.19  E-value=1.1e-06  Score=79.08  Aligned_cols=161  Identities=20%  Similarity=0.266  Sum_probs=80.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-CChHHHHHHHHHhhhc--ccchhhHHHHHHHHhcCcccCCCCc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-ENNNELRSLLVDISSK--KKKSNVTLSGLLNCIGGLWSTCGGE  304 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-~~~~~l~~l~~~~~~~--~~~~~~~~s~lL~~ldg~~~~~~~~  304 (431)
                      +.+.|.|++|+||||+.+++|+.|+++|++.|---- .....+..+|......  .......+..++..=+.+-+..|  
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR~~E~~vl~~l~~~~~~ViaTGG--   80 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLETEVLKELLEEDNAVIATGG--   80 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHHHHHHHHHHHHhhcCCeEEECCC--
Confidence            468999999999999999999999999999864211 1223456666543332  22233444444443233332222  


Q ss_pred             eEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH-hhchh-cchhHHHHHhHhccCCCCHHHHHHHhcccC
Q 035603          305 RIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN-YLEIE-SHELFHEIGSLLGETDITPADVAENLMPKS  382 (431)
Q Consensus       305 ~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~-~l~~~-~~~~~~~i~~l~~~~~~s~adI~~~l~~~~  382 (431)
                      .+|+---|+     ..|...|   ..|++..|=......+-.. .-+.- ..+....+.++..+...-+++++...... 
T Consensus        81 G~v~~~enr-----~~l~~~g---~vv~L~~~~e~l~~Rl~~~~~RPll~~~~~~~~l~~L~~~R~~~Y~e~a~~~~~~-  151 (172)
T COG0703          81 GAVLSEENR-----NLLKKRG---IVVYLDAPFETLYERLQRDRKRPLLQTEDPREELEELLEERQPLYREVADFIIDT-  151 (172)
T ss_pred             ccccCHHHH-----HHHHhCC---eEEEEeCCHHHHHHHhccccCCCcccCCChHHHHHHHHHHHHHHHHHhCcEEecC-
Confidence            222222222     1333333   4444444422222222111 01111 11123446677666555566766655542 


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 035603          383 DEDDAGTCLKNLIEALKA  400 (431)
Q Consensus       383 ~~~~~~~~l~~l~~~l~~  400 (431)
                       ........+.++..+..
T Consensus       152 -~~~~~~v~~~i~~~l~~  168 (172)
T COG0703         152 -DDRSEEVVEEILEALEG  168 (172)
T ss_pred             -CCCcHHHHHHHHHHHHH
Confidence             11124555666665543

>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=98.17  E-value=5.7e-06  Score=80.75  Aligned_cols=121  Identities=24%  Similarity=0.438  Sum_probs=69.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC---eEEecccCcCChHHHHHHHHHhhhc------------------------
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD---VYDLELTSVENNNELRSLLVDISSK------------------------  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~---i~~l~~~~~~~~~~l~~l~~~~~~~------------------------  279 (431)
                      .+.+||.||+|||||++++..-..+.-.   +..++++...+...+++++...-.+                        
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            5789999999999999998876666543   2345555544444555544322111                        


Q ss_pred             --ccchhhHHHHHHHHh---cCcccCCC------CceEEEEecCCCC---CCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          280 --KKKSNVTLSGLLNCI---GGLWSTCG------GERIIVFTTNHVD---KLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       280 --~~~~~~~~s~lL~~l---dg~~~~~~------~~~ivI~TTN~~~---~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                        +........+||..+   .|.+....      .++.+|+|+|...   .|++.|+|  .| ..+.+++|+.+....|+
T Consensus       113 ~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r--~f-~i~~~~~p~~~sl~~If  189 (272)
T PF12775_consen  113 QPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HF-NILNIPYPSDESLNTIF  189 (272)
T ss_dssp             ---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TE-EEEE----TCCHHHHHH
T ss_pred             CCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--he-EEEEecCCChHHHHHHH
Confidence              122222334555443   23332211      2467888887542   47889998  66 57899999988888777


Q ss_pred             HHhhc
Q 035603          346 KNYLE  350 (431)
Q Consensus       346 ~~~l~  350 (431)
                      ..++.
T Consensus       190 ~~il~  194 (272)
T PF12775_consen  190 SSILQ  194 (272)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            76654

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.16  E-value=4.6e-05  Score=81.08  Aligned_cols=149  Identities=15%  Similarity=0.194  Sum_probs=90.2

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      ...+|++++|.....+.+.+.+......           ...+||+|++||||+++|+++-...   +-+|+.+||..+.
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~-----------~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~  267 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAML-----------DAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIP  267 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCC
Confidence            4467999999988877777776554432           3469999999999999999986654   3589999999875


Q ss_pred             ChHHHH-HHHHHhh------------------hc-------ccchhhHHHHHHHHhcCc-ccCCC------CceEEEEec
Q 035603          265 NNNELR-SLLVDIS------------------SK-------KKKSNVTLSGLLNCIGGL-WSTCG------GERIIVFTT  311 (431)
Q Consensus       265 ~~~~l~-~l~~~~~------------------~~-------~~~~~~~~s~lL~~ldg~-~~~~~------~~~ivI~TT  311 (431)
                      . +.+. .+|....                  +.       +.-+......|++.+..- ....+      ..+-||+||
T Consensus       268 ~-~~~e~elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st  346 (520)
T PRK10820        268 D-DVVESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICAT  346 (520)
T ss_pred             H-HHHHHHhcCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEec
Confidence            3 2232 3342111                  11       222344456677776431 11111      124577777


Q ss_pred             CCC-------CCCChhhhccCcee-EEEEcCCCC--HHHHHHHHHHhhc
Q 035603          312 NHV-------DKLDPALIRRGRMD-KHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       312 N~~-------~~Ld~AllRpGRfd-~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                      +..       ..+.+.|..  |+. ..|.+|+..  .+....++..|+.
T Consensus       347 ~~~l~~l~~~g~f~~dL~~--rL~~~~i~lPpLreR~~Di~~L~~~fl~  393 (520)
T PRK10820        347 QKNLVELVQKGEFREDLYY--RLNVLTLNLPPLRDRPQDIMPLTELFVA  393 (520)
T ss_pred             CCCHHHHHHcCCccHHHHh--hcCeeEEeCCCcccChhHHHHHHHHHHH
Confidence            653       234555665  653 556666654  2345556666654

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

Probab=98.16  E-value=8.5e-06  Score=78.72  Aligned_cols=66  Identities=21%  Similarity=0.369  Sum_probs=44.2

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      ..+.++-+.+...+.....+..+..   +|.     -+.+++|+||||||||.||.|||+++   |.+++.+..+++
T Consensus        76 ~~~~d~~~~~~~~~~~l~~~~~~~~---~~~-----~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el  144 (254)
T COG1484          76 FEEFDFEFQPGIDKKALEDLASLVE---FFE-----RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDL  144 (254)
T ss_pred             cccccccCCcchhHHHHHHHHHHHH---Hhc-----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence            3444555555555554444444432   222     45799999999999999999999987   566666666554

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.14  E-value=4.9e-05  Score=77.35  Aligned_cols=152  Identities=15%  Similarity=0.169  Sum_probs=99.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH----cCCCeEEecccCc
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC----LNYDVYDLELTSV  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~----l~~~i~~l~~~~~  263 (431)
                      ....+++|+|....-+++++.+..+-           |....+|++|++||||+.+|++|...    .+-+|+.+||..+
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~~a-----------p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~  141 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKAYA-----------PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAY  141 (403)
T ss_pred             cchhhhhhhccCHHHHHHHHHHHhhC-----------CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHh
Confidence            34568999999998888888876621           34567999999999999999999743    3568999999999


Q ss_pred             CChHHHHHHHHHhhhc-------------------------ccchhhHHHHHHHHhcC-----ccc--CCCCceEEEEec
Q 035603          264 ENNNELRSLLVDISSK-------------------------KKKSNVTLSGLLNCIGG-----LWS--TCGGERIIVFTT  311 (431)
Q Consensus       264 ~~~~~l~~l~~~~~~~-------------------------~~~~~~~~s~lL~~ldg-----~~~--~~~~~~ivI~TT  311 (431)
                      ..+-...++|......                         ..-.......||..||.     +.+  .....+-+|++|
T Consensus       142 ~en~~~~eLFG~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT  221 (403)
T COG1221         142 SENLQEAELFGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICAT  221 (403)
T ss_pred             CcCHHHHHHhccccceeecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeecc
Confidence            7776666677643332                         11223344557777764     211  112245677776


Q ss_pred             CC-C-CCCCh--hhhccCceeEEEEcCCCC--HHHHHHHHHHhhch
Q 035603          312 NH-V-DKLDP--ALIRRGRMDKHIEMPYCC--FEAFKVLAKNYLEI  351 (431)
Q Consensus       312 N~-~-~~Ld~--AllRpGRfd~~I~~~~p~--~~~r~~i~~~~l~~  351 (431)
                      |- + +.+-.  .|.|+ |+...|.+|+..  .+++..++.+|+..
T Consensus       222 ~~~l~~~~~~g~dl~~r-l~~~~I~LPpLrER~~Di~~L~e~Fl~~  266 (403)
T COG1221         222 TEDLEEAVLAGADLTRR-LNILTITLPPLRERKEDILLLAEHFLKS  266 (403)
T ss_pred             ccCHHHHHHhhcchhhh-hcCceecCCChhhchhhHHHHHHHHHHH
Confidence            63 2 22222  33332 677788888764  45666777777753

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.13  E-value=3.7e-05  Score=84.56  Aligned_cols=64  Identities=19%  Similarity=0.291  Sum_probs=53.4

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      .+|++++|.....+.+.+.+......           ...+||+|+||||||++|++|....   +.+++.++|..+.
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~-----------~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~  439 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQS-----------DSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMP  439 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCC
Confidence            56889999999999988888765543           3579999999999999999998754   5689999998764

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.12  E-value=2.8e-05  Score=74.48  Aligned_cols=162  Identities=17%  Similarity=0.219  Sum_probs=104.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-CCCe--------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-NYDV--------  255 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-~~~i--------  255 (431)
                      ..-.|.+++.+.+.++....+.....     .     ...   ..+|+|||+|+||-+.+-++-+++ |..+        
T Consensus         5 dkyrpksl~~l~~~~e~~~~Lksl~~-----~-----~d~---PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~   71 (351)
T KOG2035|consen    5 DKYRPKSLDELIYHEELANLLKSLSS-----T-----GDF---PHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETR   71 (351)
T ss_pred             hhcCcchhhhcccHHHHHHHHHHhcc-----c-----CCC---CeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeE
Confidence            44578889998888777776644221     0     012   269999999999999999988765 3111        


Q ss_pred             --------------------EEecccCcCChH--HHHHHHHHhhhc-------------------ccchhhHHHHHHHHh
Q 035603          256 --------------------YDLELTSVENNN--ELRSLLVDISSK-------------------KKKSNVTLSGLLNCI  294 (431)
Q Consensus       256 --------------------~~l~~~~~~~~~--~l~~l~~~~~~~-------------------~~~~~~~~s~lL~~l  294 (431)
                                          ++++.++.+..+  -+++++.+....                   +.-......+|-..|
T Consensus        72 t~~tpS~kklEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTM  151 (351)
T KOG2035|consen   72 TFTTPSKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTM  151 (351)
T ss_pred             EEecCCCceEEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHH
Confidence                                122333333222  245565554433                   233445566677777


Q ss_pred             cCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHH-HHhHhcc
Q 035603          295 GGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHE-IGSLLGE  366 (431)
Q Consensus       295 dg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~-i~~l~~~  366 (431)
                      +...++    .=+|+.+|...++-+++..++   .-|.+|.|+.++...++.+.+..+...+-.+ +.+++++
T Consensus       152 EkYs~~----~RlIl~cns~SriIepIrSRC---l~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~k  217 (351)
T KOG2035|consen  152 EKYSSN----CRLILVCNSTSRIIEPIRSRC---LFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEK  217 (351)
T ss_pred             HHHhcC----ceEEEEecCcccchhHHhhhe---eEEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHHHHHHH
Confidence            766544    447778898899999998843   6799999999999999888887665443333 3455543

>PRK06526 transposase; Provisional

Probab=98.12  E-value=5.9e-06  Score=79.78  Aligned_cols=34  Identities=26%  Similarity=0.429  Sum_probs=27.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +.+++|+||||||||.|+.+|+.++   |..++..+.
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~  134 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA  134 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence            4689999999999999999999875   555544443

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.12  E-value=9.6e-06  Score=70.77  Aligned_cols=119  Identities=20%  Similarity=0.298  Sum_probs=67.5

Q ss_pred             cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC---CeEEecccCcCChHHHHHHH
Q 035603          197 MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY---DVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       197 g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~---~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |.....+.+.+.+......           ...+||+|+|||||+++|++|....+.   +++.+++....     .+++
T Consensus         2 G~S~~~~~l~~~l~~~a~~-----------~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----~~~l   65 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAKS-----------SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----AELL   65 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHCS-----------SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----HHHH
T ss_pred             CCCHHHHHHHHHHHHHhCC-----------CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----HHHH
Confidence            4445566666666655543           467999999999999999999987764   45555555533     3455


Q ss_pred             HHhhhc-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC------CChhhhccCcee-EEEEcCC
Q 035603          274 VDISSK-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK------LDPALIRRGRMD-KHIEMPY  335 (431)
Q Consensus       274 ~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~------Ld~AllRpGRfd-~~I~~~~  335 (431)
                      ..+.+.       +.-+......|++.++...  ...-++|..++-.++.      +++.|..  |+. ..|.+|+
T Consensus        66 ~~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~--~~~~RlI~ss~~~l~~l~~~~~~~~~L~~--~l~~~~i~lPp  137 (138)
T PF14532_consen   66 EQAKGGTLYLKNIDRLSPEAQRRLLDLLKRQE--RSNVRLIASSSQDLEELVEEGRFSPDLYY--RLSQLEIHLPP  137 (138)
T ss_dssp             HHCTTSEEEEECGCCS-HHHHHHHHHHHHHCT--TTTSEEEEEECC-CCCHHHHSTHHHHHHH--HCSTCEEEE--
T ss_pred             HHcCCCEEEECChHHCCHHHHHHHHHHHHhcC--CCCeEEEEEeCCCHHHHhhccchhHHHHH--HhCCCEEeCCC
Confidence            544333       3445556666777776432  1122444444444433      5566655  443 4555553

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.11  E-value=1.5e-05  Score=79.71  Aligned_cols=36  Identities=25%  Similarity=0.381  Sum_probs=30.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      .+++|+||||||||+|+.|||+++   |..++.++..++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l  222 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADEL  222 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHH
Confidence            789999999999999999999986   667776665543

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.09  E-value=7e-05  Score=79.63  Aligned_cols=65  Identities=15%  Similarity=0.248  Sum_probs=54.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH-----------cCCCeEEe
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC-----------LNYDVYDL  258 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~-----------l~~~i~~l  258 (431)
                      .+|++++|.....+.+.+.+..+-..           ...+||+|+|||||+++|++|-+.           .+.+|+.+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s-----------~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~i  284 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARS-----------SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAV  284 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEe
Confidence            56899999999888888877655543           357999999999999999999876           45689999


Q ss_pred             cccCcCC
Q 035603          259 ELTSVEN  265 (431)
Q Consensus       259 ~~~~~~~  265 (431)
                      ||..+..
T Consensus       285 nCaal~e  291 (538)
T PRK15424        285 NCGAIAE  291 (538)
T ss_pred             ecccCCh
Confidence            9998753

>PRK07261 topology modulation protein; Provisional

Probab=98.09  E-value=8.6e-06  Score=73.91  Aligned_cols=100  Identities=19%  Similarity=0.231  Sum_probs=62.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCCCceEEEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIVF  309 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~  309 (431)
                      +++.||||+||||+++.|+..++++++.+|.-.....-            .   ......++..+..+..  ++ . .|+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~------------~---~~~~~~~~~~~~~~~~--~~-~-wIi   63 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNW------------Q---ERDDDDMIADISNFLL--KH-D-WII   63 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEecccc------------c---cCCHHHHHHHHHHHHh--CC-C-EEE
Confidence            78999999999999999999999998887654322110            0   0011122222222211  12 3 444


Q ss_pred             ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          310 TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      -.|....+-+..+.  +.|..|.+.+|.......+++..+.
T Consensus        64 dg~~~~~~~~~~l~--~ad~vI~Ld~p~~~~~~R~lkR~~~  102 (171)
T PRK07261         64 DGNYSWCLYEERMQ--EADQIIFLNFSRFNCLYRAFKRYLK  102 (171)
T ss_pred             cCcchhhhHHHHHH--HCCEEEEEcCCHHHHHHHHHHHHHH
Confidence            44554434345555  7899999999988877777777653

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.07  E-value=0.00021  Score=68.74  Aligned_cols=104  Identities=13%  Similarity=0.115  Sum_probs=70.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC----------------------CeEEecccC-cCChHHHHHHHHHhhhc---
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY----------------------DVYDLELTS-VENNNELRSLLVDISSK---  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~----------------------~i~~l~~~~-~~~~~~l~~l~~~~~~~---  279 (431)
                      .+.++||+||+|+||..+|.++|..+-+                      +++.+.... .-..++++++.......   
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e   85 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE   85 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence            4568999999999999999999987643                      222221111 01234555554332211   


Q ss_pred             ------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCC
Q 035603          280 ------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYC  336 (431)
Q Consensus       280 ------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p  336 (431)
                                  +.-.....+.||..++.    +..+.++|++|+.++.|.|.+++  |. ..+.++.+
T Consensus        86 ~~~~KV~II~~ae~m~~~AaNaLLK~LEE----Pp~~t~fiLit~~~~~lLpTI~S--RC-q~~~~~~~  147 (261)
T PRK05818         86 SNGKKIYIIYGIEKLNKQSANSLLKLIEE----PPKNTYGIFTTRNENNILNTILS--RC-VQYVVLSK  147 (261)
T ss_pred             cCCCEEEEeccHhhhCHHHHHHHHHhhcC----CCCCeEEEEEECChHhCchHhhh--he-eeeecCCh
Confidence                        33345678889999884    55679999999999999999998  54 34556665

>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=98.07  E-value=3e-06  Score=71.63  Aligned_cols=31  Identities=35%  Similarity=0.704  Sum_probs=28.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      |++.||||+||||+|+.+|..+|+.++.++-
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            7899999999999999999999999887765

...

>PRK08118 topology modulation protein; Reviewed

Probab=98.07  E-value=1.3e-05  Score=72.38  Aligned_cols=100  Identities=20%  Similarity=0.133  Sum_probs=63.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                      -+++.||||+||||+|+.|++.++++++.+|.-.-...            -...+......++..+-   ..  +.  .|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~------------w~~~~~~~~~~~~~~~~---~~--~~--wV   63 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPN------------WEGVPKEEQITVQNELV---KE--DE--WI   63 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccC------------CcCCCHHHHHHHHHHHh---cC--CC--EE
Confidence            58999999999999999999999999988874321100            00011112222222211   11  11  44


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +-.|....++..+-   +.|..|.+..|...-...+++..+.
T Consensus        64 idG~~~~~~~~~l~---~~d~vi~Ld~p~~~~~~R~~~R~~~  102 (167)
T PRK08118         64 IDGNYGGTMDIRLN---AADTIIFLDIPRTICLYRAFKRRVQ  102 (167)
T ss_pred             EeCCcchHHHHHHH---hCCEEEEEeCCHHHHHHHHHHHHHH
Confidence            55566656665543   6899999999988777777777653

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.06  E-value=0.00025  Score=70.08  Aligned_cols=114  Identities=17%  Similarity=0.180  Sum_probs=80.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC-------------CeEEec--ccCcCChHHHHHHHHHhhhc-----------
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY-------------DVYDLE--LTSVENNNELRSLLVDISSK-----------  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------~i~~l~--~~~~~~~~~l~~l~~~~~~~-----------  279 (431)
                      .+..|||+|++|.||+.++.++|+.+-+             ++..++  ...+ ..++++.+.....-.           
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i-~vd~Ir~l~~~~~~~~~~~~~~KvvI   95 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDL-SKSEFLSAINKLYFSSFVQSQKKILI   95 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcC-CHHHHHHHHHHhccCCcccCCceEEE
Confidence            3468999999999999999999998722             233344  2221 235666665443221           


Q ss_pred             ----ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          280 ----KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       280 ----~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                          +.......+.||..|+.    +++.+++|++|+.++.|-|++..+|   ..+++++++.++....+..
T Consensus        96 I~~~e~m~~~a~NaLLK~LEE----Pp~~t~~il~~~~~~kll~TI~SRc---~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132         96 IKNIEKTSNSLLNALLKTIEE----PPKDTYFLLTTKNINKVLPTIVSRC---QVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             EecccccCHHHHHHHHHHhhC----CCCCeEEEEEeCChHhChHHHHhCe---EEEECCCCCHHHHHHHHHH
Confidence                22345567789999985    4556888888889999999998855   6799999988877765544

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

Probab=98.05  E-value=8.2e-05  Score=73.19  Aligned_cols=70  Identities=17%  Similarity=0.231  Sum_probs=49.0

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -|+|+++.|+.+-=.+..-......-..+. --.|+.+|..||.|+|||-+||.+|+..+.||+.+..+..
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKf   86 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKF   86 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeee
Confidence            368888888877544433222111111110 1136899999999999999999999999999999987643

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.04  E-value=7.3e-05  Score=73.25  Aligned_cols=104  Identities=15%  Similarity=0.201  Sum_probs=72.3

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC----------------CeEEecccCc---CChHHHHHHHHHhhhc-------
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY----------------DVYDLELTSV---ENNNELRSLLVDISSK-------  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~----------------~i~~l~~~~~---~~~~~l~~l~~~~~~~-------  279 (431)
                      .+.+|||+||+|+||+.+|.++|..+-+                +++.+....-   -..+.++.+......+       
T Consensus        18 l~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~k   97 (290)
T PRK05917         18 VPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYK   97 (290)
T ss_pred             cCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCce
Confidence            3458999999999999999999997754                2333322111   1344566655443322       


Q ss_pred             -------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCC
Q 035603          280 -------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYC  336 (431)
Q Consensus       280 -------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p  336 (431)
                             +.-.....+.||..|+.    +.+++++|..|+.++.|.|.+++  |. ..+.|+.+
T Consensus        98 v~ii~~ad~mt~~AaNaLLK~LEE----Pp~~~~fiL~~~~~~~ll~TI~S--Rc-q~~~~~~~  154 (290)
T PRK05917         98 IYIIHEADRMTLDAISAFLKVLED----PPQHGVIILTSAKPQRLPPTIRS--RS-LSIHIPME  154 (290)
T ss_pred             EEEEechhhcCHHHHHHHHHHhhc----CCCCeEEEEEeCChhhCcHHHHh--cc-eEEEccch
Confidence                   33455678899999984    45669999999999999999988  44 45666644

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.03  E-value=5.6e-05  Score=80.31  Aligned_cols=150  Identities=18%  Similarity=0.198  Sum_probs=93.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      ....+|++++|.....+.+.+.+..+-..           ...+||+|+|||||+++|++|-+..   +.+|+.+||..+
T Consensus       206 ~~~~~f~~iiG~S~~m~~~~~~i~~~A~~-----------~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l  274 (526)
T TIGR02329       206 RTRYRLDDLLGASAPMEQVRALVRLYARS-----------DATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAI  274 (526)
T ss_pred             ccccchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccC
Confidence            34467999999999888888877665543           3579999999999999999998764   568999999987


Q ss_pred             CChHHHH-HHHHHh-------------------hhc-------ccchhhHHHHHHHHhcCcc-cCCC------CceEEEE
Q 035603          264 ENNNELR-SLLVDI-------------------SSK-------KKKSNVTLSGLLNCIGGLW-STCG------GERIIVF  309 (431)
Q Consensus       264 ~~~~~l~-~l~~~~-------------------~~~-------~~~~~~~~s~lL~~ldg~~-~~~~------~~~ivI~  309 (431)
                      .. ..+. .+|...                   .+.       +.-+......|+..|+.-. ...|      -++-+|+
T Consensus       275 ~e-~lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIa  353 (526)
T TIGR02329       275 AE-SLLEAELFGYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVA  353 (526)
T ss_pred             Ch-hHHHHHhcCCcccccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEe
Confidence            53 2233 233211                   000       2223445667777775321 0001      1234777


Q ss_pred             ecCCC--C-----CCChhhhccCcee-EEEEcCCCC--HHHHHHHHHHhhc
Q 035603          310 TTNHV--D-----KLDPALIRRGRMD-KHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       310 TTN~~--~-----~Ld~AllRpGRfd-~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                      |||..  +     .+.+.|..  |+. ..|++|+..  .+....|+.+|+.
T Consensus       354 at~~~l~~~v~~g~fr~dL~~--rL~~~~I~lPPLReR~eDI~~L~~~fl~  402 (526)
T TIGR02329       354 ATHCALTTAVQQGRFRRDLFY--RLSILRIALPPLRERPGDILPLAAEYLV  402 (526)
T ss_pred             ccCCCHHHHhhhcchhHHHHH--hcCCcEEeCCCchhchhHHHHHHHHHHH
Confidence            77653  1     22333433  453 567777764  3456667777765

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.

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

Probab=98.02  E-value=3.6e-05  Score=78.52  Aligned_cols=154  Identities=15%  Similarity=0.174  Sum_probs=84.8

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----CeEEecc
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----DVYDLEL  260 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----~i~~l~~  260 (431)
                      ..+..+|++.+..+.-.-.. .....+-..+      |. ....++||||.|.|||.|++|++++...     .++.++.
T Consensus        80 l~~~ytFdnFv~g~~N~~A~-aa~~~va~~~------g~-~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~s  151 (408)
T COG0593          80 LNPKYTFDNFVVGPSNRLAY-AAAKAVAENP------GG-AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTS  151 (408)
T ss_pred             CCCCCchhheeeCCchHHHH-HHHHHHHhcc------CC-cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccH
Confidence            33447788876554433222 2222222222      22 3357999999999999999999997643     2333333


Q ss_pred             cCcC----------ChHHHHHHHHHhh-------hcccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC---CChh
Q 035603          261 TSVE----------NNNELRSLLVDIS-------SKKKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK---LDPA  320 (431)
Q Consensus       261 ~~~~----------~~~~l~~l~~~~~-------~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~---Ld~A  320 (431)
                      ....          .-..+++.+ ...       ..-.....+..+|.+.+..+....  +.||+.+-..|..   ++|.
T Consensus       152 e~f~~~~v~a~~~~~~~~Fk~~y-~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~--kqIvltsdr~P~~l~~~~~r  228 (408)
T COG0593         152 EDFTNDFVKALRDNEMEKFKEKY-SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENG--KQIVLTSDRPPKELNGLEDR  228 (408)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHhh-ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcC--CEEEEEcCCCchhhccccHH
Confidence            2210          001111111 100       001122233445555555443322  2555555555654   4588


Q ss_pred             hhccCce--eEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          321 LIRRGRM--DKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       321 llRpGRf--d~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      |.+  ||  ...+++..|+.+.|..++.......
T Consensus       229 L~S--R~~~Gl~~~I~~Pd~e~r~aiL~kka~~~  260 (408)
T COG0593         229 LRS--RLEWGLVVEIEPPDDETRLAILRKKAEDR  260 (408)
T ss_pred             HHH--HHhceeEEeeCCCCHHHHHHHHHHHHHhc
Confidence            888  65  4678899999999999998865433

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

Probab=98.00  E-value=4e-06  Score=76.64  Aligned_cols=37  Identities=35%  Similarity=0.679  Sum_probs=27.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      +.+++|+||||||||.||.|||+++   |..+..++..++
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L   86 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDL   86 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCce
Confidence            5799999999999999999999864   677777665543

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.00  E-value=0.00011  Score=78.00  Aligned_cols=146  Identities=15%  Similarity=0.155  Sum_probs=90.0

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNN  267 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~  267 (431)
                      .+++++|.....+.+.+.+...-..           +..+||+|++||||+++|++|....   +.+++.+||..+.. .
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~-----------~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~-~  252 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAAS-----------DLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPE-S  252 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCCh-H
Confidence            5688999999888888877664432           4589999999999999999998874   46899999998753 2


Q ss_pred             HHH-HHHHHhh------------------hc-------ccchhhHHHHHHHHhcCcc-cC------CCCceEEEEecCCC
Q 035603          268 ELR-SLLVDIS------------------SK-------KKKSNVTLSGLLNCIGGLW-ST------CGGERIIVFTTNHV  314 (431)
Q Consensus       268 ~l~-~l~~~~~------------------~~-------~~~~~~~~s~lL~~ldg~~-~~------~~~~~ivI~TTN~~  314 (431)
                      .+. .+|....                  +.       +.-.......|++.++.-. ..      ...++-||+|||..
T Consensus       253 ~~e~~lfG~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  332 (509)
T PRK05022        253 LAESELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRD  332 (509)
T ss_pred             HHHHHhcCccccccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCC
Confidence            232 3333211                  00       2223445567777775321 00      01134677777753


Q ss_pred             -------CCCChhhhccCcee-EEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 -------DKLDPALIRRGRMD-KHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 -------~~Ld~AllRpGRfd-~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                             ..+.+.|..  |+. ..|++|+..  .+..-.++.+|+.
T Consensus       333 l~~~~~~~~f~~dL~~--rl~~~~i~lPpLreR~eDI~~L~~~fl~  376 (509)
T PRK05022        333 LREEVRAGRFRADLYH--RLSVFPLSVPPLRERGDDVLLLAGYFLE  376 (509)
T ss_pred             HHHHHHcCCccHHHHh--cccccEeeCCCchhchhhHHHHHHHHHH
Confidence                   234445544  443 346666653  2445556666654

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.98  E-value=7.5e-06  Score=73.48  Aligned_cols=35  Identities=34%  Similarity=0.423  Sum_probs=31.5

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.+..++|+||||||||++++++|..+++++++.+
T Consensus         2 ~~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            35678999999999999999999999999999765

>PRK09862 putative ATP-dependent protease; Provisional

Probab=97.98  E-value=2.8e-05  Score=81.86  Aligned_cols=133  Identities=20%  Similarity=0.232  Sum_probs=79.4

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCe--EEecccCcC---
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDV--YDLELTSVE---  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i--~~l~~~~~~---  264 (431)
                      ..|.++.|...+++.+.-               -......++|+||||||||++++.|++.+.-.-  ..++.+.+.   
T Consensus       188 ~d~~~v~Gq~~~~~al~l---------------aa~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~  252 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEI---------------TAAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLV  252 (506)
T ss_pred             cCeEEEECcHHHHhhhhe---------------eccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhh
Confidence            367777777665554321               122346799999999999999999998654210  011111110   


Q ss_pred             ------------------ChHHHHHHHHH-----------hhhc-------ccchhhHHHHHHHHhcC-cc--cC-----
Q 035603          265 ------------------NNNELRSLLVD-----------ISSK-------KKKSNVTLSGLLNCIGG-LW--ST-----  300 (431)
Q Consensus       265 ------------------~~~~l~~l~~~-----------~~~~-------~~~~~~~~s~lL~~ldg-~~--~~-----  300 (431)
                                        .......++..           +.+.       .......+..|++.|+. ..  +.     
T Consensus       253 g~~~~~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~  332 (506)
T PRK09862        253 NAESVQKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKI  332 (506)
T ss_pred             ccccccCCcCCCCccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcce
Confidence                              00011112211           1111       33455677888887732 21  11     


Q ss_pred             -CCCceEEEEecCCCC---------------------CCChhhhccCceeEEEEcCCCCHH
Q 035603          301 -CGGERIIVFTTNHVD---------------------KLDPALIRRGRMDKHIEMPYCCFE  339 (431)
Q Consensus       301 -~~~~~ivI~TTN~~~---------------------~Ld~AllRpGRfd~~I~~~~p~~~  339 (431)
                       ...++.+|+|+|...                     +|..+++.  |||.++.+++|+.+
T Consensus       333 ~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~  391 (506)
T PRK09862        333 TYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLPPPG  391 (506)
T ss_pred             eccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCCCHH
Confidence             123478999999653                     58889999  99999999999866

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.97  E-value=0.00054  Score=66.15  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=22.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -++|+||||+|||++++.+++.+.
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcC
Confidence            478999999999999999999986

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.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.97  E-value=4e-05  Score=87.33  Aligned_cols=120  Identities=19%  Similarity=0.242  Sum_probs=85.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc--------------------------
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK--------------------------  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~--------------------------  279 (431)
                      ..+++||.|-||+|||+|+.|+|+..|-.++.+|+++-   .+|..+|.....-                          
T Consensus      1542 v~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQ---TdL~DLfGsd~Pve~~Gef~w~dapfL~amr~G~WVlLD 1618 (4600)
T COG5271        1542 VGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQ---TDLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDGGWVLLD 1618 (4600)
T ss_pred             cCCceeecCCCCccHHHHHHHHHHHhcCceEEeecccc---chHHHHhCCCCCcccCceeEecccHHHHHhhcCCEEEee
Confidence            35789999999999999999999999999999999873   3455555332111                          


Q ss_pred             --ccchhhHHHHHHHHhcCcc----------cCCCCceEEEEecCCC------CCCChhhhccCceeEEEEcCCCCHHHH
Q 035603          280 --KKKSNVTLSGLLNCIGGLW----------STCGGERIIVFTTNHV------DKLDPALIRRGRMDKHIEMPYCCFEAF  341 (431)
Q Consensus       280 --~~~~~~~~s~lL~~ldg~~----------~~~~~~~ivI~TTN~~------~~Ld~AllRpGRfd~~I~~~~p~~~~r  341 (431)
                        +-.++.++.+|-.++|--.          -.+..+..|++|-|.-      ..||..++.  ||. .|.+...+.+..
T Consensus      1619 EiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~n--RFs-vV~~d~lt~dDi 1695 (4600)
T COG5271        1619 EINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLN--RFS-VVKMDGLTTDDI 1695 (4600)
T ss_pred             hhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhh--hhh-eEEecccccchH
Confidence              2345566667666665321          1234456777777754      369999999  884 678888888777


Q ss_pred             HHHHHHhhch
Q 035603          342 KVLAKNYLEI  351 (431)
Q Consensus       342 ~~i~~~~l~~  351 (431)
                      ..|++..++.
T Consensus      1696 ~~Ia~~~yp~ 1705 (4600)
T COG5271        1696 THIANKMYPQ 1705 (4600)
T ss_pred             HHHHHhhCCc
Confidence            7777776653

>TIGR00368 Mg chelatase-related protein

Probab=97.96  E-value=4.4e-05  Score=80.50  Aligned_cols=47  Identities=28%  Similarity=0.491  Sum_probs=36.4

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..|++|.|.+.+++.+.-.+               .....++|.||||||||+++++|+..+
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa---------------~~g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA---------------AGGHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc---------------cCCCEEEEEecCCCCHHHHHHHHhccc
Confidence            47999999988876653221               223579999999999999999999754

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

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

Probab=97.90  E-value=4.9e-05  Score=74.23  Aligned_cols=37  Identities=32%  Similarity=0.520  Sum_probs=34.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      +..+||.||.|||||.||+.+|+.|+.||..-|++.+
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtL  133 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTL  133 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccch
Confidence            3469999999999999999999999999999998887

>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=97.89  E-value=0.00017  Score=71.96  Aligned_cols=62  Identities=27%  Similarity=0.423  Sum_probs=44.6

Q ss_pred             cc-ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-CCeEEecc
Q 035603          192 FD-TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-YDVYDLEL  260 (431)
Q Consensus       192 f~-~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-~~i~~l~~  260 (431)
                      |+ ++.|.++..++|.+.+..--.+       +-.-++-++|.||+|+|||+|++.+.+.+. +++|.+..
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g-------~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~  122 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQG-------LEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKG  122 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhc-------cCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecC
Confidence            55 7899999888887755433321       123356788999999999999999988663 46666533

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.89  E-value=1.6e-05  Score=83.76  Aligned_cols=66  Identities=21%  Similarity=0.332  Sum_probs=49.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-CCeEEecc
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-YDVYDLEL  260 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-~~i~~l~~  260 (431)
                      ...-|+++.|.+++++.|.+.+..-...      ++ ..++-++|.||||+|||||+++||..+. +++|.+..
T Consensus        71 ry~fF~d~yGlee~ieriv~~l~~Aa~g------l~-~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg  137 (644)
T PRK15455         71 RYPAFEEFYGMEEAIEQIVSYFRHAAQG------LE-EKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA  137 (644)
T ss_pred             cccchhcccCcHHHHHHHHHHHHHHHHh------cC-CCCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence            3456999999999999998776544332      11 2345788999999999999999998763 46776644

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=0.00049  Score=76.23  Aligned_cols=115  Identities=19%  Similarity=0.278  Sum_probs=74.5

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCC-CCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCC---
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK-AWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVEN---  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~---  265 (431)
                      +.|+|+++....|-+.+......      ++. .+.-.+||.||.|+|||-||+|+|..+   .-.++.+|+++...   
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~g------l~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evsk  635 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAG------LKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSK  635 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcc------cCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhh
Confidence            45688888888887777655431      122 244578999999999999999999976   23588888886311   


Q ss_pred             ----------hHHHHHHHHHhhhc----------ccchhhHHHHHHHHhcCcccCCC-------CceEEEEecCC
Q 035603          266 ----------NNELRSLLVDISSK----------KKKSNVTLSGLLNCIGGLWSTCG-------GERIIVFTTNH  313 (431)
Q Consensus       266 ----------~~~l~~l~~~~~~~----------~~~~~~~~s~lL~~ldg~~~~~~-------~~~ivI~TTN~  313 (431)
                                ......+......+          +..+...++.|+..+|.-.-..+       .+.|||||+|.
T Consensus       636 ligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~  710 (898)
T KOG1051|consen  636 LIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNV  710 (898)
T ss_pred             ccCCCcccccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEeccc
Confidence                      11222222222222          44556778888888875332222       25799999885

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=97.84  E-value=0.00021  Score=74.48  Aligned_cols=67  Identities=19%  Similarity=0.225  Sum_probs=54.9

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      +..+.+|++|+|......++++.+..+-           +....+|+.|.+||||..+|++|-+..   +-||+.+||..
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A-----------~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaA  306 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRIA-----------KTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAA  306 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhhc-----------CCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEeccc
Confidence            4567889999999888777776554433           345689999999999999999998876   45899999998


Q ss_pred             c
Q 035603          263 V  263 (431)
Q Consensus       263 ~  263 (431)
                      +
T Consensus       307 i  307 (560)
T COG3829         307 I  307 (560)
T ss_pred             C
Confidence            7

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

Probab=97.83  E-value=3.2e-05  Score=66.21  Aligned_cols=53  Identities=17%  Similarity=0.085  Sum_probs=42.4

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..|.|++-+++.|.+.+..++.++.      -..|--+-||||||||||.+++.||+.+
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            4578999999999999999997641      1223345699999999999999999974

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

>PRK09183 transposase/IS protein; Provisional

Probab=97.82  E-value=3.1e-05  Score=75.10  Aligned_cols=36  Identities=22%  Similarity=0.353  Sum_probs=28.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      ...++|+||||||||+|+.+|+..+   |..+..++..+
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~  140 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAAD  140 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHH
Confidence            4679999999999999999997653   66666665443

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=97.81  E-value=0.00014  Score=80.67  Aligned_cols=118  Identities=19%  Similarity=0.212  Sum_probs=68.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCe-------EEecccCcCC-hHHH-HHH------HHHhhhc-------ccchhhH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDV-------YDLELTSVEN-NNEL-RSL------LVDISSK-------KKKSNVT  286 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i-------~~l~~~~~~~-~~~l-~~l------~~~~~~~-------~~~~~~~  286 (431)
                      .+||.|+||||||.+++++++......       ..++++.... .+.. ...      +..+...       +......
T Consensus       494 hVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~  573 (915)
T PTZ00111        494 NVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNES  573 (915)
T ss_pred             eEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEcCCCeEEecchhhCCHHH
Confidence            699999999999999999998654332       2222222100 0000 000      0000000       2233455


Q ss_pred             HHHHHHHhcCc---------ccCCCCceEEEEecCCCC-------------CCChhhhccCceeEE-EEcCCCCHHHHHH
Q 035603          287 LSGLLNCIGGL---------WSTCGGERIIVFTTNHVD-------------KLDPALIRRGRMDKH-IEMPYCCFEAFKV  343 (431)
Q Consensus       287 ~s~lL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~AllRpGRfd~~-I~~~~p~~~~r~~  343 (431)
                      .+.|+..|..-         ...-....-||+|+|..+             .|+++|+.  |||.. +-++.|+.+.=+.
T Consensus       574 Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~  651 (915)
T PTZ00111        574 RLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQL  651 (915)
T ss_pred             HHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHH
Confidence            67778877432         111223578999999752             47899999  99987 4567888765555


Q ss_pred             HHHHh
Q 035603          344 LAKNY  348 (431)
Q Consensus       344 i~~~~  348 (431)
                      |..+.
T Consensus       652 lA~hI  656 (915)
T PTZ00111        652 ISLSI  656 (915)
T ss_pred             HHHHH
Confidence            54443

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

Probab=97.81  E-value=3.7e-05  Score=75.09  Aligned_cols=126  Identities=17%  Similarity=0.220  Sum_probs=79.3

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----  254 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----  254 (431)
                      ..|.  +-.+|..+++|++.+++...+.+.    .         +.+--...|+|||||||||+.+.|.|..+-.+    
T Consensus        29 ~pwv--ekyrP~~l~dv~~~~ei~st~~~~----~---------~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~   93 (360)
T KOG0990|consen   29 QPWV--EKYRPPFLGIVIKQEPIWSTENRY----S---------GMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTT   93 (360)
T ss_pred             CCCc--cCCCCchhhhHhcCCchhhHHHHh----c---------cCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCch
Confidence            4565  777899999999998887766443    1         22222289999999999999999999987542    


Q ss_pred             --eEEecccCcCChHHH---HHHHHHhhhc-----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecC
Q 035603          255 --VYDLELTSVENNNEL---RSLLVDISSK-----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTN  312 (431)
Q Consensus       255 --i~~l~~~~~~~~~~l---~~l~~~~~~~-----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN  312 (431)
                        +..+++++-.+.+.+   .+.|..+...                 +.......++|-..+....    .+.-++..+|
T Consensus        94 ~m~lelnaSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t----~n~rF~ii~n  169 (360)
T KOG0990|consen   94 SMLLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYT----ANTRFATISN  169 (360)
T ss_pred             hHHHHhhccCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhc----cceEEEEecc
Confidence              333444443322222   2233333321                 2223334455555555442    3345557789


Q ss_pred             CCCCCChhhhc
Q 035603          313 HVDKLDPALIR  323 (431)
Q Consensus       313 ~~~~Ld~AllR  323 (431)
                      ++..+-|++..
T Consensus       170 ~~~ki~pa~qs  180 (360)
T KOG0990|consen  170 PPQKIHPAQQS  180 (360)
T ss_pred             ChhhcCchhhc
Confidence            99999999986

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.80  E-value=4.3e-05  Score=68.58  Aligned_cols=29  Identities=34%  Similarity=0.627  Sum_probs=26.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +++.|+|||||||+++.++ ++|++++.++
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 9999988765

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=97.79  E-value=3.9e-05  Score=85.15  Aligned_cols=192  Identities=20%  Similarity=0.246  Sum_probs=113.4

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHh-CHHHHHHhCCCC-Cc-eeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTE-GKEYYAKIGKAW-KR-GYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~-~~~~~~~~g~~~-~r-g~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .|.  .-..|.....+.+.......+.+.+..+-. .+..|..-+... .+ ..|++||||.|||+.+.+.|.++|+.++
T Consensus       309 ~~~--~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~~v~  386 (871)
T KOG1968|consen  309 GWT--EKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGFKVV  386 (871)
T ss_pred             ccc--cccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhccccee
Confidence            565  445677778888887777777766665522 122232222111 12 3699999999999999999999999999


Q ss_pred             EecccCcCChHHHHHHHHHhhhcc-------------cchhhHHHHHHHHhcCcccCC------------CCceEEEEec
Q 035603          257 DLELTSVENNNELRSLLVDISSKK-------------KKSNVTLSGLLNCIGGLWSTC------------GGERIIVFTT  311 (431)
Q Consensus       257 ~l~~~~~~~~~~l~~l~~~~~~~~-------------~~~~~~~s~lL~~ldg~~~~~------------~~~~ivI~TT  311 (431)
                      ..|.+...+...+...+..+....             ......+.-|++..||+....            ...+-+|+|+
T Consensus       387 E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~dRg~v~~l~~l~~ks~~Piv~~c  466 (871)
T KOG1968|consen  387 EKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGEDRGGVSKLSSLCKKSSRPLVCTC  466 (871)
T ss_pred             ecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchhhhhHHHHHHHHHhccCCeEEEe
Confidence            999998877766666555433320             000001111223333332200            0125688999


Q ss_pred             CCCCCCCh-hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhccCCCCHHHHHHHhc
Q 035603          312 NHVDKLDP-ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGETDITPADVAENLM  379 (431)
Q Consensus       312 N~~~~Ld~-AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~~~~s~adI~~~l~  379 (431)
                      |....... ++.|   -..-|+|+.|+......-+..+...+... ..+.++++..   .+.+||.+.++
T Consensus       467 ndr~~p~sr~~~~---~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~---~~~~DiR~~i~  530 (871)
T KOG1968|consen  467 NDRNLPKSRALSR---ACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISK---LSGGDIRQIIM  530 (871)
T ss_pred             cCCCCccccchhh---hcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHH---hcccCHHHHHH
Confidence            98777665 4444   33678999999888776666655433221 2233444443   33555554443

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=9.9e-05  Score=74.72  Aligned_cols=109  Identities=24%  Similarity=0.334  Sum_probs=74.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC--------hHHHHHHHHHhhhc-------------------
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN--------NNELRSLLVDISSK-------------------  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~--------~~~l~~l~~~~~~~-------------------  279 (431)
                      +..+||-||.|+|||.||+.||.-++.||...|++.+..        +.-|.+++..+...                   
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            347999999999999999999999999999999998721        23355666554332                   


Q ss_pred             ---------ccchhhHHHHHHHHhcCccc---------CCCCceEEEEecCC-------CCCCChhhhccCce-eEEEEc
Q 035603          280 ---------KKKSNVTLSGLLNCIGGLWS---------TCGGERIIVFTTNH-------VDKLDPALIRRGRM-DKHIEM  333 (431)
Q Consensus       280 ---------~~~~~~~~s~lL~~ldg~~~---------~~~~~~ivI~TTN~-------~~~Ld~AllRpGRf-d~~I~~  333 (431)
                               +-........||..++|-.-         ...++.+.|=|||-       --.||.-+-|  |+ |..+-|
T Consensus       306 ~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~r--R~~d~slGF  383 (564)
T KOG0745|consen  306 KAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISR--RLDDKSLGF  383 (564)
T ss_pred             cCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHH--hhcchhccc
Confidence                     11223456778999887321         22234555556553       3467777777  65 456777


Q ss_pred             CCCC
Q 035603          334 PYCC  337 (431)
Q Consensus       334 ~~p~  337 (431)
                      +.|+
T Consensus       384 g~~s  387 (564)
T KOG0745|consen  384 GAPS  387 (564)
T ss_pred             CCCC
Confidence            7774

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

Probab=97.76  E-value=3.1e-05  Score=66.18  Aligned_cols=47  Identities=30%  Similarity=0.497  Sum_probs=33.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc--------CCCeEEecccCcCChHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL--------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l--------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      ++.++++||||+|||++++.++..+        ..+++.+++....+...+..-+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   58 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEI   58 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHH
Confidence            4578999999999999999999987        6778888776655444444333

>PRK13947 shikimate kinase; Provisional

Probab=97.76  E-value=2.6e-05  Score=70.16  Aligned_cols=32  Identities=31%  Similarity=0.453  Sum_probs=29.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .++|.||||||||++++.+|..+|+++++.+.
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            48999999999999999999999999998764

>PRK03839 putative kinase; Provisional

Probab=97.75  E-value=2.4e-05  Score=71.26  Aligned_cols=30  Identities=37%  Similarity=0.625  Sum_probs=28.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++|.|+||+||||+++.+|+.+++++++++
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            789999999999999999999999998765

>PRK00625 shikimate kinase; Provisional

Probab=97.74  E-value=2.7e-05  Score=70.87  Aligned_cols=32  Identities=28%  Similarity=0.448  Sum_probs=29.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -++|.|+||+|||++++.+|..++++++++|.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D~   33 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTDD   33 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhhH
Confidence            38999999999999999999999999998874

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=97.74  E-value=0.00048  Score=72.24  Aligned_cols=146  Identities=15%  Similarity=0.169  Sum_probs=88.6

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNN  267 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~  267 (431)
                      .+.+++|.....+.+.+.+....           +....+|+.|++|||||++|++|.....   .+++.++|..+.. +
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~-----------~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~-~  203 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLS-----------RSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPK-D  203 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHh-----------ccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCH-H
Confidence            35567777766666655554322           2245799999999999999999998764   6899999998733 3


Q ss_pred             HHH-HHHHHhhh------------------c-------ccchhhHHHHHHHHhcCccc-C-CC-----CceEEEEecCCC
Q 035603          268 ELR-SLLVDISS------------------K-------KKKSNVTLSGLLNCIGGLWS-T-CG-----GERIIVFTTNHV  314 (431)
Q Consensus       268 ~l~-~l~~~~~~------------------~-------~~~~~~~~s~lL~~ldg~~~-~-~~-----~~~ivI~TTN~~  314 (431)
                      .+. .+|....+                  .       +.-.......|+..++.-.- . .+     -.+-||+||+..
T Consensus       204 ~~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  283 (469)
T PRK10923        204 LIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQN  283 (469)
T ss_pred             HHHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCC
Confidence            333 33332110                  0       22233455667777753210 0 01     124567777642


Q ss_pred             -------CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 -------DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 -------~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                             ..+.+.|..  |+ ...|.+|+..  .+....|+.+|+.
T Consensus       284 l~~~~~~~~~~~~L~~--~l~~~~i~~PpLreR~~Di~~l~~~~l~  327 (469)
T PRK10923        284 LEQRVQEGKFREDLFH--RLNVIRVHLPPLRERREDIPRLARHFLQ  327 (469)
T ss_pred             HHHHHHcCCchHHHHH--HhcceeecCCCcccchhhHHHHHHHHHH
Confidence                   245566766  66 5677777764  3566667777764

>PTZ00202 tuzin; Provisional

Probab=97.73  E-value=0.0012  Score=67.79  Aligned_cols=112  Identities=14%  Similarity=0.185  Sum_probs=66.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      -|....+.+|-+.....|...+.          ......++-+.|.||+|||||++++.++..++...+.+|+..  ..+
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~----------~~d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNprg--~eE  324 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLR----------RLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVRG--TED  324 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHh----------ccCCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCCC--HHH
Confidence            45556677887766666644332          123334567789999999999999999999998888888873  234


Q ss_pred             HHHHHHHHhhhcccch-hhHHHHHHHHhcCcccCCCCceEEEEec
Q 035603          268 ELRSLLVDISSKKKKS-NVTLSGLLNCIGGLWSTCGGERIIVFTT  311 (431)
Q Consensus       268 ~l~~l~~~~~~~~~~~-~~~~s~lL~~ldg~~~~~~~~~ivI~TT  311 (431)
                      -++.++....-..... ...+..+-+.+-......|...++|.+-
T Consensus       325 lLr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l  369 (550)
T PTZ00202        325 TLRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKL  369 (550)
T ss_pred             HHHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            4444444433221111 2333444444443333334445666553

>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=97.73  E-value=3e-05  Score=68.27  Aligned_cols=30  Identities=33%  Similarity=0.498  Sum_probs=28.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++|+||||+|||++++.+|..+++++++.+
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            789999999999999999999999998776

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.

>PLN02199 shikimate kinase

Probab=97.72  E-value=0.00012  Score=71.69  Aligned_cols=34  Identities=32%  Similarity=0.543  Sum_probs=31.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+.++|.|++|+|||++++.+|+.+|+++++.|.
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~  135 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDT  135 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehHH
Confidence            4689999999999999999999999999998874

>PRK13949 shikimate kinase; Provisional

Probab=97.72  E-value=3.1e-05  Score=70.14  Aligned_cols=33  Identities=33%  Similarity=0.469  Sum_probs=30.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +.++|.||||+|||++++.+|+.++++++++|.
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D~   34 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLDF   34 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeecccH
Confidence            358999999999999999999999999998773

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=97.71  E-value=0.00099  Score=65.47  Aligned_cols=111  Identities=23%  Similarity=0.238  Sum_probs=74.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEecccCc-CChHHHHHHHHHhhhc-
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELTSV-ENNNELRSLLVDISSK-  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~~~-~~~~~l~~l~~~~~~~-  279 (431)
                      .+.+|||+||  +||+++|.++|..+-+                        +++.+....- -..+.++++....... 
T Consensus        23 l~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~p  100 (290)
T PRK07276         23 LNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQSG  100 (290)
T ss_pred             cceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhCc
Confidence            3568999997  5899999999986643                        2222222110 1235677665544332 


Q ss_pred             -------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHH
Q 035603          280 -------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAK  346 (431)
Q Consensus       280 -------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~  346 (431)
                                   +.-....-+.||..|+.    ++.++++|.+|+.++.|-|.+++  |. .+|.|+. +.+...+++.
T Consensus       101 ~~~~~kV~II~~ad~m~~~AaNaLLKtLEE----Pp~~t~~iL~t~~~~~lLpTI~S--Rc-q~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        101 YEGKQQVFIIKDADKMHVNAANSLLKVIEE----PQSEIYIFLLTNDENKVLPTIKS--RT-QIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             ccCCcEEEEeehhhhcCHHHHHHHHHHhcC----CCCCeEEEEEECChhhCchHHHH--cc-eeeeCCC-cHHHHHHHHH
Confidence                         33455678899999984    45668999999999999999998  44 6788866 4554444443

>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=97.71  E-value=2.1e-05  Score=68.33  Aligned_cols=28  Identities=43%  Similarity=0.679  Sum_probs=24.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +++.||||||||++|+.++..++..++.
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            6899999999999999999999955544

...

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

Probab=97.70  E-value=4.4e-05  Score=79.27  Aligned_cols=73  Identities=32%  Similarity=0.427  Sum_probs=54.8

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ..|.  .--.|.+.++|+.......++.+++..+....      .....|-+||+||+|||||+.++.||.++|+.+...
T Consensus        70 elW~--eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~------~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew  141 (634)
T KOG1970|consen   70 ELWV--EKYKPRTLEELAVHKKKISEVKQWLKQVAEFT------PKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEW  141 (634)
T ss_pred             chhH--HhcCcccHHHHhhhHHhHHHHHHHHHHHHHhc------cCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeee
Confidence            4675  55689999999998777777766665222111      112346789999999999999999999999998876


Q ss_pred             c
Q 035603          259 E  259 (431)
Q Consensus       259 ~  259 (431)
                      .
T Consensus       142 ~  142 (634)
T KOG1970|consen  142 S  142 (634)
T ss_pred             c
Confidence            4

>PF13173 AAA_14: AAA domain

Probab=97.69  E-value=0.00011  Score=63.06  Aligned_cols=36  Identities=25%  Similarity=0.453  Sum_probs=31.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEecccCc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN--YDVYDLELTSV  263 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l~~~~~  263 (431)
                      +.++|+||+|||||++++.++..+.  .+++.+++.+.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~   40 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDP   40 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCH
Confidence            5689999999999999999998876  77888887765

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.69  E-value=0.00021  Score=68.00  Aligned_cols=117  Identities=14%  Similarity=0.182  Sum_probs=65.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC---cCChHHHHHHHHHhhhcc--cchhhHHHHHHHHhcCcccCCCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS---VENNNELRSLLVDISSKK--KKSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~---~~~~~~l~~l~~~~~~~~--~~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                      -++|.||||+|||++++.+|..+|++++.++---   +.....+...+.....+.  -....+.+-+...+..+...+..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~~~is~gdllr~~~~~~t~lg~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~~~   87 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENLKHINMGNILREEIKAKTTIGKEIQKVVTSGNLVPDNLVIAIVKDEIAKVTDDCFK   87 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEECChHHHHHhhcCChHHHHHHHHHHcCCcCCHHHHHHHHHHHHHhhccccCc
Confidence            3899999999999999999999998877654211   111112222222222221  11233444444454432112222


Q ss_pred             ceEEEEecCCCCCCChhhh--ccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          304 ERIIVFTTNHVDKLDPALI--RRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~All--RpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                       .+ |+-. .|..++.+..  .-++.+..|.+..|+......+....
T Consensus        88 -g~-iLDG-fPRt~~Qa~~l~~~~~~~~vi~l~~~~~~~~~Rl~~Rr  131 (229)
T PTZ00088         88 -GF-ILDG-FPRNLKQCKELGKITNIDLFVNIYLPRNILIKKLLGRR  131 (229)
T ss_pred             -eE-EEec-CCCCHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHcCc
Confidence             22 3222 4445554432  33578889999999877666666554

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.65  E-value=0.00016  Score=64.66  Aligned_cols=29  Identities=34%  Similarity=0.575  Sum_probs=25.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||||||++++.+++.++..+++.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~~   29 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIEG   29 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEeC
Confidence            57899999999999999999999766543

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.

>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=97.65  E-value=0.00018  Score=72.99  Aligned_cols=31  Identities=26%  Similarity=0.504  Sum_probs=27.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..+.++|+.||||+|+|||+|.-.....+..
T Consensus        58 ~~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~   88 (362)
T PF03969_consen   58 PPPPPKGLYLWGPVGRGKTMLMDLFYDSLPI   88 (362)
T ss_pred             cCCCCceEEEECCCCCchhHHHHHHHHhCCc
Confidence            3567899999999999999999999887754

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

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=97.63  E-value=0.0007  Score=72.80  Aligned_cols=111  Identities=15%  Similarity=0.109  Sum_probs=76.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccC----cCChHHHHHHHHHhhh------------c-------ccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTS----VENNNELRSLLVDISS------------K-------KKK  282 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~----~~~~~~l~~l~~~~~~------------~-------~~~  282 (431)
                      .|+||-|++|||||+++++++.-+.-  +|..+-.+.    +-+.-+|...+..-..            .       ...
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            58999999999999999999998865  666553332    1122233333322221            1       445


Q ss_pred             hhhHHHHHHHHhcC---------cccCCCCceEEEEecCCC---CCCChhhhccCceeEEEEcCCCCHHH
Q 035603          283 SNVTLSGLLNCIGG---------LWSTCGGERIIVFTTNHV---DKLDPALIRRGRMDKHIEMPYCCFEA  340 (431)
Q Consensus       283 ~~~~~s~lL~~ldg---------~~~~~~~~~ivI~TTN~~---~~Ld~AllRpGRfd~~I~~~~p~~~~  340 (431)
                      ...+++.|++.|+.         .........++|+|-|..   +.|+++++.  ||+++|.+++|+..+
T Consensus       106 ~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--Rf~l~v~v~~~~~~~  173 (584)
T PRK13406        106 EPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--RLAFHLDLDGLALRD  173 (584)
T ss_pred             CHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--heEEEEEcCCCChHH
Confidence            67889999999853         322333457788875543   569999999  999999999998654

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.63  E-value=0.00067  Score=63.66  Aligned_cols=29  Identities=31%  Similarity=0.512  Sum_probs=26.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++++||||+|||++++.||..+|+..+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            89999999999999999999999776654

>PRK13948 shikimate kinase; Provisional

Probab=97.63  E-value=6.4e-05  Score=68.97  Aligned_cols=36  Identities=25%  Similarity=0.130  Sum_probs=32.6

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +.++.++|.|+||||||++++.+|..+++++++.|.
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D~   43 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTDR   43 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECCH
Confidence            345789999999999999999999999999998873

>PRK08233 hypothetical protein; Provisional

Probab=97.61  E-value=0.00036  Score=63.08  Aligned_cols=113  Identities=14%  Similarity=0.102  Sum_probs=59.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC-CCeEEecccCcCC-hHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCCCce
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN-YDVYDLELTSVEN-NNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGER  305 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~-~~i~~l~~~~~~~-~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~~~~  305 (431)
                      .-+.+.||||+||||+++.||..++ ..++..+.-.... ...+.......   .......+..+...+....+..+..+
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLKNSKALYFDRYDFDNCPEDICKWIDKG---ANYSEWVLTPLIKDIQELIAKSNVDY   80 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCCCCceEEECCEEcccCchhhhhhhhcc---CChhhhhhHHHHHHHHHHHcCCCceE
Confidence            3466789999999999999999996 4455554333211 11222222211   11122233344444433322222123


Q ss_pred             EEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       306 ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                       ||.-... ..+.+.+..  .+|..|.+..|.......+.+.
T Consensus        81 -vivd~~~-~~~~~~~~~--~~d~~i~l~~~~~~~~~R~~~R  118 (182)
T PRK08233         81 -IIVDYPF-AYLNSEMRQ--FIDVTIFIDTPLDIAMARRILR  118 (182)
T ss_pred             -EEEeeeh-hhccHHHHH--HcCEEEEEcCCHHHHHHHHHHH
Confidence             3333222 234445544  6899999998887655554433

>PRK06921 hypothetical protein; Provisional

Probab=97.61  E-value=0.00011  Score=71.60  Aligned_cols=36  Identities=33%  Similarity=0.548  Sum_probs=29.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      ..+++|+||||||||.|+.|||+++    |..++.+...+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~  156 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVE  156 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHH
Confidence            5689999999999999999999976    55666665433

>PF05729 NACHT: NACHT domain

Probab=97.59  E-value=0.00032  Score=61.89  Aligned_cols=24  Identities=42%  Similarity=0.682  Sum_probs=21.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |-++++|+||+|||++++.++..+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHH
Confidence            457899999999999999999765

>PLN03210 Resistant to P

Probab=97.59  E-value=0.0011  Score=77.27  Aligned_cols=60  Identities=17%  Similarity=0.223  Sum_probs=43.4

Q ss_pred             eeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          183 HVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       183 ~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .+...++..+++++|.++..++|...+.           .+....+-+-++||+|+||||||+++++.+..
T Consensus       174 ~l~~~~~~~~~~~vG~~~~l~~l~~lL~-----------l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~  233 (1153)
T PLN03210        174 KLNLTPSNDFEDFVGIEDHIAKMSSLLH-----------LESEEVRMVGIWGSSGIGKTTIARALFSRLSR  233 (1153)
T ss_pred             hhccccCcccccccchHHHHHHHHHHHc-----------cccCceEEEEEEcCCCCchHHHHHHHHHHHhh
Confidence            3344456778889998877777655432           12334567889999999999999999887654

syringae 6; Provisional

>PRK14532 adenylate kinase; Provisional

Probab=97.58  E-value=6e-05  Score=69.06  Aligned_cols=115  Identities=16%  Similarity=0.230  Sum_probs=60.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec-ccC--cC----ChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE-LTS--VE----NNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTC  301 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~-~~~--~~----~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~  301 (431)
                      .++|.||||+|||++++.||..+|+.++..+ +-.  +.    ....+..++..  ...-....+...+...+....  +
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~~d~lr~~~~~~~~~~~~~~~~~~~--g~~~~~~~~~~~~~~~~~~~~--~   77 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLSTGDMLRAAIASGSELGQRVKGIMDR--GELVSDEIVIALIEERLPEAE--A   77 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeCcHHHHHHHHcCCHHHHHHHHHHHC--CCccCHHHHHHHHHHHHhCcC--c
Confidence            3889999999999999999999998776542 100  10    11123333321  111112233333444444332  2


Q ss_pred             CCceEEEEecC---CCCCCChhhhccC-ceeEEEEcCCCCHHHHHHHHHH
Q 035603          302 GGERIIVFTTN---HVDKLDPALIRRG-RMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       302 ~~~~ivI~TTN---~~~~Ld~AllRpG-Rfd~~I~~~~p~~~~r~~i~~~  347 (431)
                      +.++++=+.-.   ..+.++..+...| ..|..|.+..|.......+...
T Consensus        78 ~~g~vldg~pr~~~q~~~~~~~l~~~g~~pd~vi~L~v~~~~~~~Rl~~R  127 (188)
T PRK14532         78 AGGAIFDGFPRTVAQAEALDKMLASRGQKIDVVIRLKVDDEALIERIVKR  127 (188)
T ss_pred             cCcEEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHHcC
Confidence            33344433221   2223333333332 4678888888877666555544

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.57  E-value=6.5e-05  Score=68.36  Aligned_cols=29  Identities=24%  Similarity=0.512  Sum_probs=25.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +++.||||+|||++++.||..+|+..+..
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~   30 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA   30 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68999999999999999999998765544

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.

>PRK06217 hypothetical protein; Validated

Probab=97.57  E-value=6.8e-05  Score=68.59  Aligned_cols=102  Identities=16%  Similarity=0.091  Sum_probs=56.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                      -|+|.|+||+||||++++||..+|++++++|.-.-.... ..  +    ............++..+.     .++..||-
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~~~~-~~--~----~~~~~~~~~~~~~~~~~~-----~~~~~vi~   70 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWLPTD-PP--F----TTKRPPEERLRLLLEDLR-----PREGWVLS   70 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeeccCC-CC--c----cccCCHHHHHHHHHHHHh-----cCCCEEEE
Confidence            389999999999999999999999998877632211100 00  0    000011111222333331     12223333


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                        -+... ....+..  ++|..|.+..|.......+.+.
T Consensus        71 --G~~~~-~~~~~~~--~~d~~i~Ld~~~~~~~~Rl~~R  104 (183)
T PRK06217         71 --GSALG-WGDPLEP--LFDLVVFLTIPPELRLERLRLR  104 (183)
T ss_pred             --ccHHH-HHHHHHh--hCCEEEEEECCHHHHHHHHHcC
Confidence              33332 1223333  7889999988877766666654

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.57  E-value=0.00015  Score=66.28  Aligned_cols=28  Identities=39%  Similarity=0.675  Sum_probs=23.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      -+++.||||+||||+|+.||+.++++-+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hl   29 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHL   29 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            3789999999999999999999665444

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.56  E-value=0.00092  Score=62.31  Aligned_cols=26  Identities=35%  Similarity=0.749  Sum_probs=23.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...++|+||+|+|||+|++.+.+.+.
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINELK   45 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHhh
Confidence            46899999999999999999999884

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

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

Probab=97.56  E-value=5.7e-05  Score=77.57  Aligned_cols=48  Identities=29%  Similarity=0.487  Sum_probs=39.8

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ...|.||.|++..|..+.-..               .-..++||+||||||||++|+.+..-|
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAA---------------AGgHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAA---------------AGGHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHH---------------hcCCcEEEecCCCCchHHhhhhhcccC
Confidence            557999999999999885432               235689999999999999999998755

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.55  E-value=6.9e-05  Score=65.95  Aligned_cols=29  Identities=34%  Similarity=0.421  Sum_probs=25.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||+|||++++.++..++..+++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~~   30 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFIDG   30 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEeC
Confidence            68999999999999999999998766644

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=97.55  E-value=0.00099  Score=69.51  Aligned_cols=62  Identities=19%  Similarity=0.195  Sum_probs=44.5

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      +..+++.......+.+.+.....           ....+|++|++||||+++|+++....   +.+++.+++..+.
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~-----------~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~  206 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIAL-----------SQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALP  206 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcC-----------CCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCC
Confidence            34456665555555554443333           23579999999999999999998764   4689999999874

>PRK14531 adenylate kinase; Provisional

Probab=97.55  E-value=8.2e-05  Score=68.10  Aligned_cols=31  Identities=29%  Similarity=0.529  Sum_probs=27.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +-+++.||||+|||++++.||..+|+..+..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            4589999999999999999999999877654

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=97.55  E-value=0.0013  Score=68.57  Aligned_cols=62  Identities=19%  Similarity=0.270  Sum_probs=44.5

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcC
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVE  264 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~  264 (431)
                      +..+++.....+.+.+.+....           .....++++|++||||+.+|+++.....   .+++.+++..+.
T Consensus       138 ~~~lig~s~~~~~l~~~i~~~a-----------~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~  202 (445)
T TIGR02915       138 LRGLITSSPGMQKICRTIEKIA-----------PSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIP  202 (445)
T ss_pred             ccceeecCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCC
Confidence            4456666665555555443222           2245789999999999999999987654   589999999874

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).

>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=97.54  E-value=7.5e-05  Score=65.01  Aligned_cols=30  Identities=33%  Similarity=0.458  Sum_probs=28.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.+.||||||||++++.||..++++++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            678999999999999999999999998877

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.54  E-value=0.0023  Score=62.78  Aligned_cols=170  Identities=16%  Similarity=0.225  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHHHhhccce-eeccCCccccCCcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC
Q 035603          148 VNQVLEEGKAIAVRNRQRKL-YKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW  226 (431)
Q Consensus       148 l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~  226 (431)
                      ++|+...++.+.....+-+| |-.       .+.|-              |.+..+ ++.+.+...+..|.      ..-
T Consensus         9 ~~HL~~~~~~~~~l~~~eRI~~i~-------~~rWI--------------gY~~A~-~~L~~L~~Ll~~P~------~~R   60 (302)
T PF05621_consen    9 YSHLHPDARELLQLSDEERIAYIR-------ADRWI--------------GYPRAK-EALDRLEELLEYPK------RHR   60 (302)
T ss_pred             hhhcCHHHHHHHhcCHHHHHHHHh-------cCCee--------------cCHHHH-HHHHHHHHHHhCCc------ccC
Confidence            46777777777665544333 222       24574              333443 34455666666542      222


Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccCcCChHHHHHH-------------------------
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTSVENNNELRSL-------------------------  272 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~l~~l-------------------------  272 (431)
                      ..++||+|++|.|||++++..+....         ++++.+.....-+...+-..                         
T Consensus        61 mp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~l  140 (302)
T PF05621_consen   61 MPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRL  140 (302)
T ss_pred             CCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHH
Confidence            35899999999999999999987542         35666655443232222211                         


Q ss_pred             HHHhhhc----c------cchhhHHHHHHHHhcCcccCCCCceEEEEecC--CCCCCChhhhccCceeEEEEcCCCC-HH
Q 035603          273 LVDISSK----K------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTN--HVDKLDPALIRRGRMDKHIEMPYCC-FE  339 (431)
Q Consensus       273 ~~~~~~~----~------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN--~~~~Ld~AllRpGRfd~~I~~~~p~-~~  339 (431)
                      |....-+    +      ..+......+||.|..+.+...-.++.|+|-.  +.=.-|+.|-+  ||+. +.+|.-. .+
T Consensus       141 lr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~--RF~~-~~Lp~W~~d~  217 (302)
T PF05621_consen  141 LRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS--RFEP-FELPRWELDE  217 (302)
T ss_pred             HHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh--ccCC-ccCCCCCCCc
Confidence            1111111    1      12233345566666655444443355566533  22345888888  9964 4445432 34


Q ss_pred             HHHHHHHHh
Q 035603          340 AFKVLAKNY  348 (431)
Q Consensus       340 ~r~~i~~~~  348 (431)
                      ++..++..+
T Consensus       218 ef~~LL~s~  226 (302)
T PF05621_consen  218 EFRRLLASF  226 (302)
T ss_pred             HHHHHHHHH
Confidence            555555544

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK13946 shikimate kinase; Provisional

Probab=97.53  E-value=8e-05  Score=68.29  Aligned_cols=34  Identities=35%  Similarity=0.438  Sum_probs=31.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++.++|.|+||||||++++.+|..+|+++++.|.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~   43 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADT   43 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcCH
Confidence            4679999999999999999999999999998874

>PRK04040 adenylate kinase; Provisional

Probab=97.53  E-value=0.00047  Score=63.58  Aligned_cols=30  Identities=27%  Similarity=0.568  Sum_probs=25.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc--CCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL--NYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l--~~~i~~  257 (431)
                      +-++++|+||||||++++.++..+  ++.++.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~~   34 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKIVN   34 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhccCCeEEe
Confidence            468899999999999999999999  666543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.53  E-value=0.00039  Score=64.74  Aligned_cols=50  Identities=18%  Similarity=0.341  Sum_probs=38.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |+|...-++++||||||||+++..+|..   .+..++.++... .....+.++.
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~-~~~~rl~~~~   60 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG-LSPERFKQIA   60 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CCHHHHHHHH
Confidence            7888888999999999999999988854   366777787765 4555565554

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.52  E-value=0.0002  Score=71.20  Aligned_cols=58  Identities=22%  Similarity=0.264  Sum_probs=43.4

Q ss_pred             cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          197 MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       197 g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .+++.++.+.+.+...+...     .-+..+..+.|.|+||||||++++.+|..+|+++++++
T Consensus       108 l~~~~~~~~~~~l~~~~~~~-----~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        108 ASPAQLARVRDALSGMLGAG-----RRAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             CCHHHHHHHHHHHHHHHhhh-----hhccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            44555566666555544422     12455678999999999999999999999999999766

>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=97.50  E-value=9.3e-05  Score=67.78  Aligned_cols=29  Identities=34%  Similarity=0.563  Sum_probs=26.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +++.||||+|||++++.||..+|+.++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            78999999999999999999999877664

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.49  E-value=0.00011  Score=66.60  Aligned_cols=34  Identities=44%  Similarity=0.684  Sum_probs=30.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++.++|.||||+|||++++.+|+.+++++++.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            4569999999999999999999999999988774

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.48  E-value=0.00021  Score=77.32  Aligned_cols=51  Identities=33%  Similarity=0.417  Sum_probs=42.0

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +|..|++|+|.++.++.|...+.               .++.+||+||||||||++++++|..+..
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~---------------~~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAK---------------QRRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHH---------------hCCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            47889999999998887755432               1247999999999999999999998864

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=97.48  E-value=0.0026  Score=67.87  Aligned_cols=150  Identities=22%  Similarity=0.250  Sum_probs=83.8

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC----c----C
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS----V----E  264 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~----~----~  264 (431)
                      +|.+.+++|+.|+  +..|=.....+..-| ..-.-.+||+|.||||||.|.+-+++-+...+|.---.+    +    .
T Consensus       430 sIye~edvKkglL--LqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVt  507 (804)
T KOG0478|consen  430 SIYELEDVKKGLL--LQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVT  507 (804)
T ss_pred             hhhcccchhhhHH--HHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEE
Confidence            4577788888774  334444444444433 111235899999999999999999998766655421111    0    0


Q ss_pred             ChHHHHHHHHHhhhc-------------ccchhhHHHHHHHHhc---------CcccCCCCceEEEEecCCCC-------
Q 035603          265 NNNELRSLLVDISSK-------------KKKSNVTLSGLLNCIG---------GLWSTCGGERIIVFTTNHVD-------  315 (431)
Q Consensus       265 ~~~~l~~l~~~~~~~-------------~~~~~~~~s~lL~~ld---------g~~~~~~~~~ivI~TTN~~~-------  315 (431)
                      -..+-++++.+....             +.-+..+.+.|+..|.         |+-..-+...=|+++.|..+       
T Consensus       508 rd~dtkqlVLesGALVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k  587 (804)
T KOG0478|consen  508 KDPDTRQLVLESGALVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNK  587 (804)
T ss_pred             ecCccceeeeecCcEEEcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCC
Confidence            001112222221111             2223345555666554         22222222345888888442       


Q ss_pred             ------CCChhhhccCceeEEE-EcCCCCHHHHHHHHHH
Q 035603          316 ------KLDPALIRRGRMDKHI-EMPYCCFEAFKVLAKN  347 (431)
Q Consensus       316 ------~Ld~AllRpGRfd~~I-~~~~p~~~~r~~i~~~  347 (431)
                            .|+|.|++  |||... -+..|+...=+.|..+
T Consensus       588 ~i~eNI~LpptLLS--RFDLIylllD~~DE~~Dr~La~H  624 (804)
T KOG0478|consen  588 SIIENINLPPTLLS--RFDLIFLLLDKPDERSDRRLADH  624 (804)
T ss_pred             chhhccCCChhhhh--hhcEEEEEecCcchhHHHHHHHH
Confidence                  48899999  999875 4567776544444444

>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=97.48  E-value=0.0012  Score=64.29  Aligned_cols=147  Identities=18%  Similarity=0.129  Sum_probs=71.3

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHH--cCC--C-eEEecccCcCChHH-HHHHHHHhhhc------ccchhhHHHHHHH
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANC--LNY--D-VYDLELTSVENNNE-LRSLLVDISSK------KKKSNVTLSGLLN  292 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~--l~~--~-i~~l~~~~~~~~~~-l~~l~~~~~~~------~~~~~~~~s~lL~  292 (431)
                      ...+-+.|+|++|+|||+||..+++.  ..-  + ++.++.+...+... +..+.......      ..........+.+
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~   96 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRE   96 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHH
T ss_pred             CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchh
Confidence            34567889999999999999999977  322  2 34455544332222 23333222111      0011111111111


Q ss_pred             Hh---------cC------------cccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          293 CI---------GG------------LWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       293 ~l---------dg------------~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      .+         |+            .......+.-||.||...... ..+-   .-+..++++..+.++-..++..+...
T Consensus        97 ~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~-~~~~---~~~~~~~l~~L~~~ea~~L~~~~~~~  172 (287)
T PF00931_consen   97 LLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVA-GSLG---GTDKVIELEPLSEEEALELFKKRAGR  172 (287)
T ss_dssp             HHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGG-TTHH---SCEEEEECSS--HHHHHHHHHHHHTS
T ss_pred             hhccccceeeeeeecccccccccccccccccccccccccccccccc-cccc---cccccccccccccccccccccccccc
Confidence            11         11            111111234566677653211 1111   12678999999999999999988754


Q ss_pred             hc----chhHHHHHhHhccCCCCHHHHH
Q 035603          352 ES----HELFHEIGSLLGETDITPADVA  375 (431)
Q Consensus       352 ~~----~~~~~~i~~l~~~~~~s~adI~  375 (431)
                      ..    ....+...++++..+-.|--|.
T Consensus       173 ~~~~~~~~~~~~~~~i~~~c~glPLal~  200 (287)
T PF00931_consen  173 KESESPEDLEDLAKEIVEKCGGLPLALK  200 (287)
T ss_dssp             HS----TTSCTHHHHHHHHTTT-HHHHH
T ss_pred             cccccccccccccccccccccccccccc
Confidence            43    1122233445554555666554

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.47  E-value=9.6e-05  Score=64.72  Aligned_cols=32  Identities=31%  Similarity=0.529  Sum_probs=28.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ..+|+.|-||||||+++..||..+|+..+.++
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            47999999999999999999999999887653

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.44  E-value=0.00014  Score=65.53  Aligned_cols=32  Identities=34%  Similarity=0.532  Sum_probs=29.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .++|.|+||||||++++.+|..+|+++++.|.
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~D~   35 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDTDQ   35 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEccH
Confidence            58899999999999999999999999998764

>PRK14529 adenylate kinase; Provisional

Probab=97.44  E-value=0.0003  Score=66.55  Aligned_cols=115  Identities=19%  Similarity=0.206  Sum_probs=62.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec-c--cCcCChHHHHHHHHHhhhc--ccchhhHHHHHHHHhcCcccCCCCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE-L--TSVENNNELRSLLVDISSK--KKKSNVTLSGLLNCIGGLWSTCGGE  304 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~-~--~~~~~~~~l~~l~~~~~~~--~~~~~~~~s~lL~~ldg~~~~~~~~  304 (431)
                      ++|.||||+||||+++.||..+++..+... +  ..+.....+...+......  --....+..-+.+.|....   ..+
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr~~i~~~t~lg~~i~~~i~~G~lvpdei~~~lv~~~l~~~~---~~g   79 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHIESGAIFREHIGGGTELGKKAKEYIDRGDLVPDDITIPMILETLKQDG---KNG   79 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCcccchhhhhhccCCChHHHHHHHHHhccCcchHHHHHHHHHHHHhccC---CCc
Confidence            789999999999999999999998765321 1  1111222222222222211  1123344555555655432   112


Q ss_pred             eEEEE---ecCCCCCCChhhhccC-ceeEEEEcCCCCHHHHHHHHHH
Q 035603          305 RIIVF---TTNHVDKLDPALIRRG-RMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       305 ~ivI~---TTN~~~~Ld~AllRpG-Rfd~~I~~~~p~~~~r~~i~~~  347 (431)
                      .|+=+   |.+..+.|+..+...| ..|..|++..|+......+...
T Consensus        80 ~iLDGfPRt~~Qa~~l~~~l~~~~~~~~~vi~l~~~~~~l~~Rl~~R  126 (223)
T PRK14529         80 WLLDGFPRNKVQAEKLWEALQKEGMKLDYVIEILLPREVAKNRIMGR  126 (223)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHhhCC
Confidence            23222   3344444444443222 5778888888887766665544

>PRK15115 response regulator GlrR; Provisional

Probab=97.44  E-value=0.0014  Score=68.11  Aligned_cols=38  Identities=21%  Similarity=0.314  Sum_probs=32.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      ...++++|++|||||++|+++....   +.+++.+++..+.
T Consensus       157 ~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~  197 (444)
T PRK15115        157 DVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALP  197 (444)
T ss_pred             CCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCC
Confidence            3569999999999999999998875   4689999999874

>PRK06762 hypothetical protein; Provisional

Probab=97.40  E-value=0.00018  Score=64.41  Aligned_cols=33  Identities=18%  Similarity=0.287  Sum_probs=27.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++-++|.|+||+|||++|+.++..++..++.++
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~   34 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERLGRGTLLVS   34 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEec
Confidence            356889999999999999999999976665554

>PRK14530 adenylate kinase; Provisional

Probab=97.40  E-value=0.00016  Score=67.92  Aligned_cols=30  Identities=30%  Similarity=0.483  Sum_probs=27.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.||||+||||+++.||..+|++++..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            589999999999999999999999887754

>PRK13808 adenylate kinase; Provisional

Probab=97.39  E-value=0.0016  Score=65.07  Aligned_cols=29  Identities=28%  Similarity=0.502  Sum_probs=25.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      |+|+||||+|||++++.||..+|+..+.+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~   31 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQYGIVQLST   31 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence            89999999999999999999998766554

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.39  E-value=0.00014  Score=64.64  Aligned_cols=28  Identities=29%  Similarity=0.511  Sum_probs=25.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +-+.|||||||||+++-||..+|++++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            5678999999999999999999999885

>PLN02674 adenylate kinase

Probab=97.39  E-value=0.00038  Score=66.72  Aligned_cols=118  Identities=16%  Similarity=0.207  Sum_probs=62.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----CChHHHHHHHHHhhhc--ccchhhHHHHHHHHhcCccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----ENNNELRSLLVDISSK--KKKSNVTLSGLLNCIGGLWS  299 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----~~~~~l~~l~~~~~~~--~~~~~~~~s~lL~~ldg~~~  299 (431)
                      ...++|.||||+||||+++.||..+|+..+..  .++     .....+...+......  --....+..-+.+.|...  
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~his~--GdllR~~i~~~s~~g~~i~~~~~~G~lvpd~iv~~lv~~~l~~~--  106 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYCLCHLAT--GDMLRAAVAAKTPLGIKAKEAMDKGELVSDDLVVGIIDEAMKKP--  106 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcCCcEEch--hHHHHHHHhccChhhHHHHHHHHcCCccCHHHHHHHHHHHHhCc--
Confidence            34689999999999999999999998765533  222     1111121111111111  112233344444555433  


Q ss_pred             CCCCceEEEE---ecCCCCCCChhhhcc-CceeEEEEcCCCCHHHHHHHHHHh
Q 035603          300 TCGGERIIVF---TTNHVDKLDPALIRR-GRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       300 ~~~~~~ivI~---TTN~~~~Ld~AllRp-GRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      .+..++|+=+   |.+..+.|+..+... ..+|..|++..|+......+....
T Consensus       107 ~~~~g~ilDGfPRt~~Qa~~l~~~l~~~~~~~d~vi~l~v~~~~l~~Rl~gR~  159 (244)
T PLN02674        107 SCQKGFILDGFPRTVVQAQKLDEMLAKQGAKIDKVLNFAIDDAILEERITGRW  159 (244)
T ss_pred             CcCCcEEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHhccc
Confidence            1222233333   223334444444322 257888888888776666665443

>PHA00729 NTP-binding motif containing protein

Probab=97.38  E-value=0.00011  Score=69.36  Aligned_cols=29  Identities=24%  Similarity=0.482  Sum_probs=25.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .++++||||||||++|.+||..++..+..
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l~~~l~~   47 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDVFWKLNN   47 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhccc
Confidence            69999999999999999999998744443

>PHA02774 E1; Provisional

Probab=97.37  E-value=0.00032  Score=74.21  Aligned_cols=38  Identities=29%  Similarity=0.495  Sum_probs=32.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE-ecc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD-LEL  260 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~-l~~  260 (431)
                      |+|.+++++||||||||||+++.+|++.++-.++. +|.
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~  468 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNS  468 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEEC
Confidence            67777899999999999999999999999765544 443

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=97.37  E-value=0.0011  Score=75.64  Aligned_cols=122  Identities=18%  Similarity=0.210  Sum_probs=78.3

Q ss_pred             CCceeEEeCCCCCcHHHH-HHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc-------------------------
Q 035603          226 WKRGYLLFGPPGTGKSTM-IAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK-------------------------  279 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsl-a~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~-------------------------  279 (431)
                      ..|||+++||||+|||+| .-++-+++-.++..+|.+.......+-..+.+....                         
T Consensus      1493 t~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T~s~ls~Ler~t~yy~~tg~~~l~PK~~vK~lVLFcDeI 1572 (3164)
T COG5245        1493 TLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFCDEI 1572 (3164)
T ss_pred             ccceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCCHHHHHHHHhhceeeccCCeEEEccCcchhheEEEeecc
Confidence            468999999999999995 568999999999999988775444344444333221                         


Q ss_pred             -----c---cchhhHHHHHHHHhcCcccCCC------CceEEEEecCCCCCC-----ChhhhccCceeEEEEcCCCCHHH
Q 035603          280 -----K---KKSNVTLSGLLNCIGGLWSTCG------GERIIVFTTNHVDKL-----DPALIRRGRMDKHIEMPYCCFEA  340 (431)
Q Consensus       280 -----~---~~~~~~~s~lL~~ldg~~~~~~------~~~ivI~TTN~~~~L-----d~AllRpGRfd~~I~~~~p~~~~  340 (431)
                           .   ...-..+-.-|-+-.|+|+...      .++++.+++|.+...     +..++|.   ...|++.||....
T Consensus      1573 nLp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r~---~v~vf~~ype~~S 1649 (3164)
T COG5245        1573 NLPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYYERFIRK---PVFVFCCYPELAS 1649 (3164)
T ss_pred             CCccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceEEEccCCCCCCcccCccHHHHhcC---ceEEEecCcchhh
Confidence                 0   0111111111223356665432      247889999977532     3455552   3678899999888


Q ss_pred             HHHHHHHhhc
Q 035603          341 FKVLAKNYLE  350 (431)
Q Consensus       341 r~~i~~~~l~  350 (431)
                      ..+|...++.
T Consensus      1650 L~~Iyea~l~ 1659 (3164)
T COG5245        1650 LRNIYEAVLM 1659 (3164)
T ss_pred             HHHHHHHHHH
Confidence            8877776654

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.36  E-value=0.0027  Score=65.02  Aligned_cols=90  Identities=17%  Similarity=0.194  Sum_probs=61.0

Q ss_pred             EEEecCCC---CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhc---------------------chhHHHHHh
Q 035603          307 IVFTTNHV---DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES---------------------HELFHEIGS  362 (431)
Q Consensus       307 vI~TTN~~---~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~---------------------~~~~~~i~~  362 (431)
                      |||.|+.+   ..|..||  |.|.-..|.++-++.+.-+..+...|....                     .....++..
T Consensus       186 VIFlT~dv~~~k~LskaL--Pn~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~  263 (431)
T PF10443_consen  186 VIFLTDDVSYSKPLSKAL--PNRVFKTISLSDASPESAKQYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDE  263 (431)
T ss_pred             EEEECCCCchhhhHHHhC--CCCceeEEeecCCCHHHHHHHHHHHhcccccccccccccccccccccccccccchHHHHH
Confidence            45555433   4567777  668889999999999998888888886431                     123445555


Q ss_pred             HhccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHHH
Q 035603          363 LLGETDITPADVAENLMPKSDEDDAGTCLKNLIEAL  398 (431)
Q Consensus       363 l~~~~~~s~adI~~~l~~~~~~~~~~~~l~~l~~~l  398 (431)
                      .++..|==..|++-++..-....+|..|++++|..-
T Consensus       264 ~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~qs  299 (431)
T PF10443_consen  264 CIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIISQS  299 (431)
T ss_pred             HHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            555445445677666555457889999999887543

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK02496 adk adenylate kinase; Provisional

Probab=97.35  E-value=0.00017  Score=65.79  Aligned_cols=29  Identities=31%  Similarity=0.598  Sum_probs=26.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +++.||||+|||++++.||..+++..+..
T Consensus         4 i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            88999999999999999999999877654

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.35  E-value=0.0013  Score=63.86  Aligned_cols=41  Identities=29%  Similarity=0.481  Sum_probs=33.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSV  263 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~  263 (431)
                      |.-..|.+|+-|+||||||-+|-.+|+.||-  +|..+..+++
T Consensus        62 gkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSEI  104 (454)
T KOG2680|consen   62 GKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEI  104 (454)
T ss_pred             CcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeeeccee
Confidence            5556789999999999999999999999985  5666655554

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=97.35  E-value=0.0032  Score=65.81  Aligned_cols=144  Identities=19%  Similarity=0.213  Sum_probs=85.6

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNEL  269 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l  269 (431)
                      ..+++......++.+.+.....           ....+++.|.+||||+++|+++....   +.+++.+++..+. .+.+
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~-----------~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~-~~~~  201 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSR-----------SDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIP-KDLI  201 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhC-----------cCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCC-HHHH
Confidence            4567777766666665544222           23578999999999999999998764   4689999998873 3333


Q ss_pred             HH-HHHHhhh------------------c-------ccchhhHHHHHHHHhcCcc-cCCC------CceEEEEecCCC--
Q 035603          270 RS-LLVDISS------------------K-------KKKSNVTLSGLLNCIGGLW-STCG------GERIIVFTTNHV--  314 (431)
Q Consensus       270 ~~-l~~~~~~------------------~-------~~~~~~~~s~lL~~ldg~~-~~~~------~~~ivI~TTN~~--  314 (431)
                      .. +|.....                  .       +.-+......|++.++.-. ...+      -++-||+|||..  
T Consensus       202 ~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~  281 (463)
T TIGR01818       202 ESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLE  281 (463)
T ss_pred             HHHhcCCCCCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHH
Confidence            33 3321110                  0       1223344566777665321 1001      124567777643  


Q ss_pred             -----CCCChhhhccCcee-EEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 -----DKLDPALIRRGRMD-KHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 -----~~Ld~AllRpGRfd-~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                           ..+.+.|..  |+. .+|++|+..  .+....++..|+.
T Consensus       282 ~~~~~~~f~~~L~~--rl~~~~i~lPpLr~R~~Di~~l~~~~l~  323 (463)
T TIGR01818       282 ALVRQGKFREDLFH--RLNVIRIHLPPLRERREDIPRLARHFLA  323 (463)
T ss_pred             HHHHcCCcHHHHHH--HhCcceecCCCcccchhhHHHHHHHHHH
Confidence                 234445554  443 478888776  5667777777764

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.33  E-value=0.0002  Score=65.22  Aligned_cols=30  Identities=20%  Similarity=0.379  Sum_probs=26.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+++.||||+||||+++.+|..+|+..+..
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            578999999999999999999998776654

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.

>PF13245 AAA_19: Part of AAA domain

Probab=97.33  E-value=0.00033  Score=54.83  Aligned_cols=33  Identities=42%  Similarity=0.619  Sum_probs=22.5

Q ss_pred             eeEEeCCCCCcHH-HHHHHHHHHc------CCCeEEeccc
Q 035603          229 GYLLFGPPGTGKS-TMIAAMANCL------NYDVYDLELT  261 (431)
Q Consensus       229 g~LL~GPPGtGKT-sla~aiA~~l------~~~i~~l~~~  261 (431)
                      -+++.|||||||| +++++++..+      +-.+..+..+
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t   51 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPT   51 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence            3556999999999 5666666655      4456655444

>PRK14528 adenylate kinase; Provisional

Probab=97.33  E-value=0.00022  Score=65.61  Aligned_cols=30  Identities=27%  Similarity=0.526  Sum_probs=26.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+++.||||+|||++++.+|..+|++.+..
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            489999999999999999999999887654

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.32  E-value=0.0002  Score=64.99  Aligned_cols=32  Identities=25%  Similarity=0.308  Sum_probs=27.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +-++|.||||+||||++++++..++..++.++
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~   34 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFG   34 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccC
Confidence            56899999999999999999999887766443

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.32  E-value=0.00015  Score=60.46  Aligned_cols=23  Identities=43%  Similarity=0.785  Sum_probs=20.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.||||||+|||++++.||..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            57999999999999999998765

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

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.31  E-value=0.00089  Score=61.63  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=23.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .++-++|.||||+|||+|++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45678999999999999999998876

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.30  E-value=0.0011  Score=62.76  Aligned_cols=51  Identities=16%  Similarity=0.170  Sum_probs=36.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-+.|+||||||||+++..+|...         +..++.++...-.....+.++.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~   74 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIA   74 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHH
Confidence            67777888999999999999999997543         2466666665533345555544

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 .

>PRK06547 hypothetical protein; Provisional

Probab=97.30  E-value=0.00025  Score=64.46  Aligned_cols=34  Identities=26%  Similarity=0.401  Sum_probs=29.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .+.-+++.||||||||++++.+|..++..++.++
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            3567889999999999999999999998877665

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=97.28  E-value=0.00027  Score=75.58  Aligned_cols=53  Identities=19%  Similarity=0.255  Sum_probs=38.4

Q ss_pred             CCCCc-eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-CChHHHHHHHHHh
Q 035603          224 KAWKR-GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-ENNNELRSLLVDI  276 (431)
Q Consensus       224 ~~~~r-g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-~~~~~l~~l~~~~  276 (431)
                      .|.++ -++|.|+||+|||++++.+|..||++|+++|..-. .....+.++|.+.
T Consensus         2 ~~~~~~~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D~~ie~~~g~si~eif~~~   56 (542)
T PRK14021          2 KPTRRPQAVIIGMMGAGKTRVGKEVAQMMRLPFADADVEIEREIGMSIPSYFEEY   56 (542)
T ss_pred             CCCCCccEEEECCCCCCHHHHHHHHHHHhCCCEEEchHHHHHHHCcCHHHHHHHH
Confidence            34444 37799999999999999999999999999885311 1222356666543

>PLN02200 adenylate kinase family protein

Probab=97.27  E-value=0.0003  Score=67.13  Aligned_cols=30  Identities=20%  Similarity=0.396  Sum_probs=26.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +.-+++.||||||||++++.||..+|+..+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~hi   72 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFGFKHL   72 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            456889999999999999999999987644

>TIGR01351 adk adenylate kinases

Probab=97.25  E-value=0.00027  Score=66.16  Aligned_cols=115  Identities=18%  Similarity=0.135  Sum_probs=59.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec-cc--CcCChHHHHHHHHHhhhc-cc-chhhHHHHHHHHhcCcccCCCCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE-LT--SVENNNELRSLLVDISSK-KK-KSNVTLSGLLNCIGGLWSTCGGE  304 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~-~~--~~~~~~~l~~l~~~~~~~-~~-~~~~~~s~lL~~ldg~~~~~~~~  304 (431)
                      +++.||||+|||++++.||..+|+..+... +-  .+.....+...+...... .. ........+.+.|.... ..+.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~gdllr~~~~~~~~~~~~~~~~~~~g~~vp~~~~~~l~~~~i~~~~-~~~~~   80 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTGDLLRAEIKAGTPLGKKAKEYMEKGELVPDEIVNQLVKERLTQNQ-DNENG   80 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeehhHHHHHhhccccHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc-ccCCc
Confidence            789999999999999999999998776542 11  011111222222211111 11 12233344444554321 11222


Q ss_pred             eEEEEecCCCCCCCh--hhhcc-C-ceeEEEEcCCCCHHHHHHHHHHh
Q 035603          305 RIIVFTTNHVDKLDP--ALIRR-G-RMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       305 ~ivI~TTN~~~~Ld~--AllRp-G-Rfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      .|+=+.   |-..+.  +|..- + ..|..|.+..|.......+....
T Consensus        81 ~ilDGf---Prt~~Qa~~l~~~~~~~~~~vi~L~~~~~~~~~Rl~~R~  125 (210)
T TIGR01351        81 FILDGF---PRTLSQAEALDALLKEKIDAVIELDVPDEELVERLSGRR  125 (210)
T ss_pred             EEEeCC---CCCHHHHHHHHHHhccCCCEEEEEECCHHHHHHHHHCCC
Confidence            444343   222221  11111 1 36788888888877666666554

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.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.23  E-value=0.00018  Score=65.06  Aligned_cols=37  Identities=27%  Similarity=0.472  Sum_probs=25.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC---eEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD---VYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~---i~~l~~~~~  263 (431)
                      ++.++|+||||+|||++++++...+...   ++.+++...
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            5789999999999999999988766444   666666655

>smart00072 GuKc Guanylate kinase homologues

Probab=97.22  E-value=0.001  Score=60.85  Aligned_cols=25  Identities=36%  Similarity=0.700  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +|-++|.||+|+||+++++.|..+.
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4678999999999999999999986

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.

>PRK14527 adenylate kinase; Provisional

Probab=97.21  E-value=0.00031  Score=64.67  Aligned_cols=31  Identities=29%  Similarity=0.558  Sum_probs=27.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.-+++.||||+|||++++.+|..+++..+.
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~~~~is   36 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELGLKKLS   36 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCCCC
Confidence            4568999999999999999999999876554

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

Probab=97.18  E-value=0.0031  Score=69.21  Aligned_cols=136  Identities=21%  Similarity=0.300  Sum_probs=88.0

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEecc
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLEL  260 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~~  260 (431)
                      .+|-|+|-++-.+.+++.+....             +..-+|.|+||+|||.++..+|...          +..++.+|+
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~-------------KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~  234 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRT-------------KNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDL  234 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccC-------------CCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecH
Confidence            36777887666666655443222             3456899999999999999999753          567889998


Q ss_pred             cCcCC--------hHHHHHHHHHhhhc----------------ccc-h-hhHHHHHHHHhcCcccCCCCceEEEEecCCC
Q 035603          261 TSVEN--------NNELRSLLVDISSK----------------KKK-S-NVTLSGLLNCIGGLWSTCGGERIIVFTTNHV  314 (431)
Q Consensus       261 ~~~~~--------~~~l~~l~~~~~~~----------------~~~-~-~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~  314 (431)
                      +.+..        ++.++.++.+....                ... . ..-.+.+|.-.-    +. ++.-.|++|+.-
T Consensus       235 g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaL----AR-GeL~~IGATT~~  309 (786)
T COG0542         235 GSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPAL----AR-GELRCIGATTLD  309 (786)
T ss_pred             HHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHH----hc-CCeEEEEeccHH
Confidence            87622        35677777666544                111 0 122333333221    12 335566665522


Q ss_pred             C-----CCChhhhccCceeEEEEcCCCCHHHHHHHHHH
Q 035603          315 D-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKN  347 (431)
Q Consensus       315 ~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~  347 (431)
                      +     .=|+||-|  || ..|.+.-|+.++-..|++-
T Consensus       310 EYRk~iEKD~AL~R--RF-Q~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         310 EYRKYIEKDAALER--RF-QKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             HHHHHhhhchHHHh--cC-ceeeCCCCCHHHHHHHHHH
Confidence            2     35999999  99 5799999999888777654

>PRK04182 cytidylate kinase; Provisional

Probab=97.18  E-value=0.00035  Score=63.03  Aligned_cols=30  Identities=30%  Similarity=0.452  Sum_probs=27.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.|+||||||++++.+|..+|+++++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id~   31 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVSA   31 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEecH
Confidence            378999999999999999999999998874

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=97.16  E-value=0.0049  Score=56.18  Aligned_cols=42  Identities=19%  Similarity=0.406  Sum_probs=30.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRS  271 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~  271 (431)
                      .-+.+.||+|+|||++++++++.++..+  ++...+.....+++
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~~~--i~gd~~~~~~~~r~   45 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSAKF--IDGDDLHPAKNIDK   45 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCEE--ECCcccCCHhHHHH
Confidence            3578999999999999999999998743  44444433333433

>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=97.16  E-value=0.00058  Score=52.22  Aligned_cols=22  Identities=36%  Similarity=0.522  Sum_probs=20.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.+.|+||+|||+++++++..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999996

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.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=97.16  E-value=0.0049  Score=64.12  Aligned_cols=75  Identities=17%  Similarity=0.190  Sum_probs=56.2

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNN  267 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~  267 (431)
                      .+..++|.....+++.+.+...-..           ...+|++|++||||..+|++|-....   -||+.+||..+-.+ 
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s-----------~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~-  206 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPS-----------DASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPEN-  206 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHH-
Confidence            4567889888888888776555443           45799999999999999999988765   49999999998432 


Q ss_pred             HH-HHHHHHhh
Q 035603          268 EL-RSLLVDIS  277 (431)
Q Consensus       268 ~l-~~l~~~~~  277 (431)
                      -+ .++|....
T Consensus       207 l~ESELFGhek  217 (464)
T COG2204         207 LLESELFGHEK  217 (464)
T ss_pred             HHHHHhhcccc
Confidence            23 33555333

>PLN02459 probable adenylate kinase

Probab=97.15  E-value=0.0009  Score=64.63  Aligned_cols=113  Identities=14%  Similarity=0.153  Sum_probs=61.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----CChHHHHHHHHHhhhcc--cchhhHHHHHHHHhcCcccCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----ENNNELRSLLVDISSKK--KKSNVTLSGLLNCIGGLWSTC  301 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----~~~~~l~~l~~~~~~~~--~~~~~~~s~lL~~ldg~~~~~  301 (431)
                      -++|.||||+|||++++.+|..+|+..+..  .++     .....+...+.....+.  -....+..-+.+.|......+
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            478899999999999999999998765543  222     12222322222222221  123344555555665432111


Q ss_pred             CCceEEE-E---ecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          302 GGERIIV-F---TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       302 ~~~~ivI-~---TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      . ..+|+ +   |.+..+.|+..    ..+|..|++..|+......+....
T Consensus       109 ~-~g~iLDGFPRt~~Qa~~Le~~----~~id~Vi~L~v~d~~l~~Rl~gR~  154 (261)
T PLN02459        109 E-SGFILDGFPRTVRQAEILEGV----TDIDLVVNLKLREEVLVEKCLGRR  154 (261)
T ss_pred             C-ceEEEeCCCCCHHHHHHHHhc----CCCCEEEEEECCHHHHHHHhhccc
Confidence            2 22333 2   22222333321    247889999988776666665443

>PRK01184 hypothetical protein; Provisional

Probab=97.15  E-value=0.00038  Score=63.47  Aligned_cols=29  Identities=24%  Similarity=0.322  Sum_probs=25.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.||||+||||+++ ++.++|++++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            47899999999999987 899999888765

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

Probab=97.14  E-value=0.00054  Score=69.82  Aligned_cols=56  Identities=27%  Similarity=0.522  Sum_probs=44.8

Q ss_pred             CcceeeeccCC--CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          179 KKWSHVYFEHP--ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       179 ~~w~~~~~~~p--~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..|+-...++-  .++++-.+++.+++.|.+.                  .+|+|+-||||.|||++|+|+|..+.
T Consensus       231 d~~EITavRPvvk~~ledY~L~dkl~eRL~er------------------aeGILIAG~PGaGKsTFaqAlAefy~  288 (604)
T COG1855         231 DRWEITAVRPVVKLSLEDYGLSDKLKERLEER------------------AEGILIAGAPGAGKSTFAQALAEFYA  288 (604)
T ss_pred             CceEEEEEeeeEEechhhcCCCHHHHHHHHhh------------------hcceEEecCCCCChhHHHHHHHHHHH
Confidence            45665544443  5789999999999888652                  36999999999999999999998764

>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=97.12  E-value=0.0003  Score=62.15  Aligned_cols=26  Identities=31%  Similarity=0.561  Sum_probs=22.8

Q ss_pred             EeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          232 LFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       232 L~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.||||+|||++++.||..+|+..+.
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            57999999999999999999875554

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 ....

>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=97.10  E-value=0.00034  Score=59.14  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=20.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |+|.|+|||||||+++.|+..+
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            6899999999999999999998

...

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=97.08  E-value=0.00051  Score=61.48  Aligned_cols=29  Identities=31%  Similarity=0.580  Sum_probs=26.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +.++|+||+|||++++.+|..+|++++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            68999999999999999999999998764

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.

>PRK14526 adenylate kinase; Provisional

Probab=97.06  E-value=0.00055  Score=64.29  Aligned_cols=28  Identities=39%  Similarity=0.764  Sum_probs=25.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ++|.||||+|||++++.||..+++..+.
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            7899999999999999999999876654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.05  E-value=0.0018  Score=65.90  Aligned_cols=25  Identities=36%  Similarity=0.545  Sum_probs=22.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +..++|.||+|+|||+++..||..+
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999999999999763

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.05  E-value=0.00063  Score=59.58  Aligned_cols=32  Identities=31%  Similarity=0.581  Sum_probs=25.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      ++++||||+|||+++..++..+   +.+++.++..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e   36 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIE   36 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECC
Confidence            6899999999999999999877   4555555543

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.

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.05  E-value=0.0067  Score=62.39  Aligned_cols=151  Identities=17%  Similarity=0.164  Sum_probs=93.3

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-----CCeEEecccCcCChH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-----YDVYDLELTSVENNN  267 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-----~~i~~l~~~~~~~~~  267 (431)
                      +++.|-+.-...+.+++...+..         .-+.++.+.|-||||||-+..-+-..+.     ...+.+++.++....
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~---------~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~  220 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLEL---------NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEAS  220 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhc---------ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchH
Confidence            55667666666665555544442         2356788999999999998875544332     245778888875443


Q ss_pred             -HHHHHHHHhhhc---cc--------------chhhHHHHHHHHhcCc--------------ccCCCCceEEEEecCCCC
Q 035603          268 -ELRSLLVDISSK---KK--------------KSNVTLSGLLNCIGGL--------------WSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       268 -~l~~l~~~~~~~---~~--------------~~~~~~s~lL~~ldg~--------------~~~~~~~~ivI~TTN~~~  315 (431)
                       -..+++......   .+              .....+--.|++||-+              ...++..+++|+.+|..|
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslD  300 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLD  300 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhh
Confidence             234444433111   00              0011111234444443              223445678999999998


Q ss_pred             CCChhhhc----cCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          316 KLDPALIR----RGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       316 ~Ld~AllR----pGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      .-|..|.|    .+.-...+.|++.+.++...|++.-+...
T Consensus       301 lTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~  341 (529)
T KOG2227|consen  301 LTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEE  341 (529)
T ss_pred             HHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcc
Confidence            87766653    34455678999999999999998887543

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=97.04  E-value=0.0018  Score=59.73  Aligned_cols=30  Identities=23%  Similarity=0.286  Sum_probs=24.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc-CCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL-NYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~  259 (431)
                      +.+.|+||||||++|+.|+..+ +..++.+|
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~i~~D   32 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCVIHQD   32 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEccc
Confidence            5678999999999999999998 45554443

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.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.03  E-value=0.00057  Score=67.30  Aligned_cols=30  Identities=30%  Similarity=0.284  Sum_probs=25.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-CCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-NYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~  257 (431)
                      .-++|.|||||||||+|+.|+..+ +..+++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~~~~~l~   33 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNPKAVNVN   33 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCCCCEEEe
Confidence            458899999999999999999998 554443

>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=97.03  E-value=0.008  Score=56.82  Aligned_cols=34  Identities=21%  Similarity=0.170  Sum_probs=25.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC-----CCeEEecccCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN-----YDVYDLELTSV  263 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~-----~~i~~l~~~~~  263 (431)
                      +-+.||+|+||||+++.|++.+.     ..+..+...+.
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            45789999999999999999884     34555554444

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.00  E-value=0.0016  Score=61.36  Aligned_cols=50  Identities=18%  Similarity=0.328  Sum_probs=36.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++++||||+|||+++..+|.+.   +..++.++... .....+.++.
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e~-~~~~r~~~~~   71 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTEG-LSPERFKQIA   71 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECCC-CCHHHHHHHH
Confidence            67777889999999999999999998743   66777777662 2334444443

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.99  E-value=0.00086  Score=58.26  Aligned_cols=29  Identities=28%  Similarity=0.441  Sum_probs=25.7

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .+.-++|.|+.|+|||++++++++.++..
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            34568899999999999999999999865

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.99  E-value=0.00055  Score=61.21  Aligned_cols=26  Identities=42%  Similarity=0.676  Sum_probs=20.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      |.|.|+||||||||+++||.. |++++
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            689999999999999999998 77755

>PRK06696 uridine kinase; Validated

Probab=96.99  E-value=0.002  Score=60.93  Aligned_cols=38  Identities=16%  Similarity=0.191  Sum_probs=31.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      +.-+.+.|+||+||||+|+.||..+   |.+++.+.+.+..
T Consensus        22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696         22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            4567789999999999999999998   6777776655553

>cd01394 radB RadB

Probab=96.98  E-value=0.0015  Score=61.21  Aligned_cols=39  Identities=26%  Similarity=0.390  Sum_probs=31.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |++.++-++++||||||||+++..+|.+.   +.+++.++..
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            67777789999999999999999998764   4566666643

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.98  E-value=0.00084  Score=59.41  Aligned_cols=30  Identities=40%  Similarity=0.545  Sum_probs=25.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      +++.|+||+|||++++.++..+   +.+.+.++
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~   34 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLD   34 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            6899999999999999999998   66665554

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

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

Probab=96.98  E-value=0.00051  Score=64.02  Aligned_cols=22  Identities=50%  Similarity=0.844  Sum_probs=17.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .++.||||||||+++.+++..+
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            7899999999998777777665

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.95  E-value=0.00068  Score=62.15  Aligned_cols=31  Identities=26%  Similarity=0.460  Sum_probs=26.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-+.|.||+|+||||+++.||..++.+++..
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~~~~~~~   33 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQTQLLVA   33 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCeEEEc
Confidence            3578999999999999999999988766543

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=96.94  E-value=0.035  Score=54.80  Aligned_cols=29  Identities=28%  Similarity=0.244  Sum_probs=26.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .|--+++.||+|||||++|..+|..+|.+
T Consensus        91 ~p~iIlI~G~sgsGKStlA~~La~~l~~~  119 (301)
T PRK04220         91 EPIIILIGGASGVGTSTIAFELASRLGIR  119 (301)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            45678999999999999999999999987

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.93  E-value=0.0042  Score=58.37  Aligned_cols=52  Identities=23%  Similarity=0.210  Sum_probs=37.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---C------CCeEEecccCcCChHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---N------YDVYDLELTSVENNNELRSLLV  274 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~------~~i~~l~~~~~~~~~~l~~l~~  274 (431)
                      |++...-+.++||||+|||+++..+|...   +      ..++.++.........+.++..
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~   75 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAV   75 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHH
Confidence            67878889999999999999999988653   2      4556666654333445555543

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.

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=96.93  E-value=0.0014  Score=57.91  Aligned_cols=49  Identities=20%  Similarity=0.305  Sum_probs=38.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHH
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVD  275 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  275 (431)
                      |.+-.+++-|+.|||||+++++++.+|+++|++  ..++...+++.++-..
T Consensus        10 ~~k~~i~vmGvsGsGKSTigk~L~~~l~~~F~d--gDd~Hp~~NveKM~~G   58 (191)
T KOG3354|consen   10 PFKYVIVVMGVSGSGKSTIGKALSEELGLKFID--GDDLHPPANVEKMTQG   58 (191)
T ss_pred             CCceeEEEEecCCCChhhHHHHHHHHhCCcccc--cccCCCHHHHHHHhcC
Confidence            445567889999999999999999999999885  4455566666665433

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.92  E-value=0.00088  Score=64.34  Aligned_cols=30  Identities=47%  Similarity=0.594  Sum_probs=25.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      ++|.|+||+|||++|+++|..+   +.+++.++
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~   34 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILG   34 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEc
Confidence            6899999999999999999987   45665554

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.

>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=96.88  E-value=0.00092  Score=59.67  Aligned_cols=36  Identities=31%  Similarity=0.386  Sum_probs=29.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      .-+.|.|.||+|||+||+++...|   |.+++.++...+
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~l   41 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNL   41 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcch
Confidence            357899999999999999999876   778888876544

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 ....

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.88  E-value=0.0086  Score=54.63  Aligned_cols=29  Identities=31%  Similarity=0.550  Sum_probs=25.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      +|-++|.||+|+|||+|++.|...+.-.|
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            57899999999999999999999887554

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 ....

>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=96.86  E-value=0.00098  Score=62.08  Aligned_cols=35  Identities=34%  Similarity=0.543  Sum_probs=27.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -+++.||+|||||.++-++|+.+|.+++.+|...+
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~   37 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQC   37 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEecceec
Confidence            47899999999999999999999999999886543

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.86  E-value=0.0013  Score=61.20  Aligned_cols=29  Identities=24%  Similarity=0.361  Sum_probs=25.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      ++-+++.|+||+|||++++.+|..+++.+
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            45688999999999999999999998754

>TIGR02012 tigrfam_recA protein RecA

Probab=96.84  E-value=0.0017  Score=64.69  Aligned_cols=40  Identities=18%  Similarity=0.201  Sum_probs=30.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      |+|..+.++++||||||||+|+..++.+.   |-.++.++...
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~   93 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   93 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence            67888889999999999999988665433   55666666554

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.

>TIGR00152 dephospho-CoA kinase

Probab=96.82  E-value=0.0053  Score=56.29  Aligned_cols=31  Identities=32%  Similarity=0.399  Sum_probs=27.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +.|+|+||||||++++.++...++++++.|.
T Consensus         2 i~itG~~gsGKst~~~~l~~~~~~~~i~~D~   32 (188)
T TIGR00152         2 IGLTGGIGSGKSTVANYLADKYHFPVIDADK   32 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeEEeCCH
Confidence            6799999999999999999988888887754

This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases.

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=96.81  E-value=0.048  Score=52.11  Aligned_cols=34  Identities=26%  Similarity=0.240  Sum_probs=29.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +...|.-+|+=|+||+||||+|.-+|..||++.+
T Consensus        85 ~~~~p~IILIGGasGVGkStIA~ElA~rLgI~~v  118 (299)
T COG2074          85 KMKRPLIILIGGASGVGKSTIAGELARRLGIRSV  118 (299)
T ss_pred             ccCCCeEEEecCCCCCChhHHHHHHHHHcCCcee
Confidence            4555777889999999999999999999998754

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.80  E-value=0.005  Score=61.45  Aligned_cols=51  Identities=12%  Similarity=0.167  Sum_probs=36.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++.+.-++++||||||||+++..+|...         +..++.++...--..+.+.++.
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~  157 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMA  157 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHH
Confidence            68888888999999999999999888653         3356667665533445555544

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=96.80  E-value=0.0034  Score=60.96  Aligned_cols=55  Identities=16%  Similarity=0.310  Sum_probs=46.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHH------HHcCCCeEEecccCcCChHHHHHHHHHhhhc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMA------NCLNYDVYDLELTSVENNNELRSLLVDISSK  279 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA------~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~  279 (431)
                      ..+..+||.||.|.|||.||+.|-      +.+.-.|+.+||..+.+...+..+|......
T Consensus       206 rsr~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkga  266 (531)
T COG4650         206 RSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGA  266 (531)
T ss_pred             hccCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccc
Confidence            345579999999999999999884      3567789999999998888888888776655

>PRK06851 hypothetical protein; Provisional

Probab=96.79  E-value=0.0043  Score=62.89  Aligned_cols=80  Identities=28%  Similarity=0.425  Sum_probs=53.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCG  302 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~  302 (431)
                      ..+-++|.||||||||++++.++..+   |+++-.+-++.-  +                         +.+||+.-.. 
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d--~-------------------------~slDgviip~-   80 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSD--N-------------------------DSLDGVIIPE-   80 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCC--C-------------------------CceeeEEecC-
Confidence            45789999999999999999999876   444333222221  0                         1366664322 


Q ss_pred             CceEEEEecCCCCCCChhhhccCceeEEEEcCCC
Q 035603          303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYC  336 (431)
Q Consensus       303 ~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p  336 (431)
                       --+.|+-.+.|..+||..  ||-+|..|.+.-+
T Consensus        81 -l~~aivDgtaph~~~P~~--pgav~eiinL~~~  111 (367)
T PRK06851         81 -LKIAILDGTAPHVVDPKA--PGAVEEIINLGDA  111 (367)
T ss_pred             -CCEEEEcCCCcCcCCCCC--CCcceEEEEHHHH
Confidence             134555555777888864  8888889988763

>PRK06851 hypothetical protein; Provisional

Probab=96.79  E-value=0.011  Score=59.97  Aligned_cols=75  Identities=28%  Similarity=0.401  Sum_probs=51.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHHHHHHhhhcccchhhHHHHHHHHhcCcccCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCG  302 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~s~lL~~ldg~~~~~~  302 (431)
                      ..+-|+|.||||||||++++.++.++   |+++...-++.--                           +.||++--.  
T Consensus       213 ~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dP---------------------------dslD~viIP--  263 (367)
T PRK06851        213 VKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDP---------------------------DSLDMVIIP--  263 (367)
T ss_pred             cceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC---------------------------CCcceEEec--
Confidence            45779999999999999999999877   6666655555421                           125555322  


Q ss_pred             CceEEEEecCCCCCCChhhhccCceeEEEEc
Q 035603          303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEM  333 (431)
Q Consensus       303 ~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~  333 (431)
                      +-.+-|+..+.|..++|.-  ||  |..|.+
T Consensus       264 el~~ai~d~t~ph~~~P~~--~g--~e~i~l  290 (367)
T PRK06851        264 ELNFAIFDSTAPHEYFPSR--EG--DEIIDM  290 (367)
T ss_pred             cCCEEEEeCCCCcccCCCC--Cc--ceeeec
Confidence            2246667667777777754  76  777776

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.78  E-value=0.014  Score=55.38  Aligned_cols=27  Identities=33%  Similarity=0.497  Sum_probs=23.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +.-+.|.||+|+|||+|++.|++.+..
T Consensus        33 ~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         33 RTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            456778899999999999999998754

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.78  E-value=0.0076  Score=61.73  Aligned_cols=26  Identities=46%  Similarity=0.731  Sum_probs=23.0

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .++-++|+||+|+||||++..+|..+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999999865

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.78  E-value=0.0048  Score=55.79  Aligned_cols=37  Identities=35%  Similarity=0.468  Sum_probs=30.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      +..+.|.|.+|+||||+|.|++..|   |+..|.+|...+
T Consensus        23 ~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnv   62 (197)
T COG0529          23 GAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNV   62 (197)
T ss_pred             CeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhH
Confidence            4567899999999999999999865   788888876543

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.78  E-value=0.0014  Score=59.79  Aligned_cols=30  Identities=33%  Similarity=0.379  Sum_probs=26.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +.|+|+||+|||++++.+++ +|+++++.|.
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D~   31 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDADK   31 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEecCH
Confidence            67999999999999999999 8988887654

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.77  E-value=0.0021  Score=64.08  Aligned_cols=40  Identities=23%  Similarity=0.256  Sum_probs=31.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |+|..+-+++|||||||||+|+-.++..   .|-.++.++...
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~   93 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEH   93 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccc
Confidence            6777788999999999999999987643   466677776644

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.76  E-value=0.0017  Score=58.81  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=23.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-++|.||||+|||+++++++..+.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999999886

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=96.76  E-value=0.0026  Score=64.13  Aligned_cols=35  Identities=31%  Similarity=0.531  Sum_probs=32.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      |+|.+.++++||||+||||+++-.+-+.++-.++.
T Consensus       258 g~PKKnClvi~GPPdTGKS~F~~SLi~Fl~GkViS  292 (432)
T PF00519_consen  258 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVIS  292 (432)
T ss_dssp             TBTTSSEEEEESSCCCSHHHHHHHHHHHHTSEEE-
T ss_pred             CCCcccEEEEECCCCCchhHHHHHHHHHhCCEEEE
Confidence            78999999999999999999999999999887765

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=96.74  E-value=0.016  Score=60.19  Aligned_cols=65  Identities=17%  Similarity=0.228  Sum_probs=44.4

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRS  271 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~  271 (431)
                      +.+.......+.+++..+.           +....++++|.+||||+++++++....   +.+|+.+++..+.. ..+..
T Consensus       141 lig~s~~~~~~~~~i~~~~-----------~~~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~-~~~~~  208 (441)
T PRK10365        141 MVGKSPAMQHLLSEIALVA-----------PSEATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNE-SLLES  208 (441)
T ss_pred             eEecCHHHHHHHHHHhhcc-----------CCCCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCH-HHHHH
Confidence            4555555555555443221           234679999999999999999997654   46899999998743 33443

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.74  E-value=0.0014  Score=61.89  Aligned_cols=40  Identities=25%  Similarity=0.331  Sum_probs=30.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      |+|.+..+|+.||||||||+|+..++...    |-+++.++...
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            78888889999999999999998766432    77777776544

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 ....

>PRK13764 ATPase; Provisional

Probab=96.73  E-value=0.0017  Score=69.71  Aligned_cols=26  Identities=42%  Similarity=0.700  Sum_probs=24.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++++|+.||||+||||+++|++.++.
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            57899999999999999999998875

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.73  E-value=0.0017  Score=62.92  Aligned_cols=39  Identities=23%  Similarity=0.155  Sum_probs=31.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~  261 (431)
                      |+|....+|++||||||||+++..+|..   .|.+++.++..
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            6788888999999999999999987653   35666666654

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.73  E-value=0.0008  Score=63.52  Aligned_cols=23  Identities=39%  Similarity=0.807  Sum_probs=20.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      +.-+|+||+||+|||++|+.+++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            35599999999999999999974

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.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=96.72  E-value=0.0076  Score=56.05  Aligned_cols=28  Identities=29%  Similarity=0.359  Sum_probs=24.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      |....-.++|.|+-|+|||++++.|+.+
T Consensus        48 g~k~d~~lvl~G~QG~GKStf~~~L~~~   75 (198)
T PF05272_consen   48 GCKNDTVLVLVGKQGIGKSTFFRKLGPE   75 (198)
T ss_pred             CCcCceeeeEecCCcccHHHHHHHHhHH
Confidence            5555667889999999999999999766

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.72  E-value=0.055  Score=58.34  Aligned_cols=123  Identities=16%  Similarity=0.196  Sum_probs=72.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC----------CCeEEecccCcCChHHHHHHHHHhhhc------------------
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN----------YDVYDLELTSVENNNELRSLLVDISSK------------------  279 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~----------~~i~~l~~~~~~~~~~l~~l~~~~~~~------------------  279 (431)
                      .++.++|-||||||.+++.+-.+|.          +.++.+|...+....++-..+-.....                  
T Consensus       423 ~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~  502 (767)
T KOG1514|consen  423 SCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTV  502 (767)
T ss_pred             eeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhcc
Confidence            3677889999999999999988664          567777777665544432222111111                  


Q ss_pred             ------------cc---chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhcc---Ccee-EEEEcCCCCHHH
Q 035603          280 ------------KK---KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRR---GRMD-KHIEMPYCCFEA  340 (431)
Q Consensus       280 ------------~~---~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRp---GRfd-~~I~~~~p~~~~  340 (431)
                                  +.   --.....-|-|.+|-.. ..+...+||+..|.-+ |+.-++-+   -|++ ..|.|.+.+..+
T Consensus       503 ~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt-~~~sKLvvi~IaNTmd-lPEr~l~nrvsSRlg~tRi~F~pYth~q  580 (767)
T KOG1514|consen  503 PKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPT-LKNSKLVVIAIANTMD-LPERLLMNRVSSRLGLTRICFQPYTHEQ  580 (767)
T ss_pred             CCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCc-CCCCceEEEEeccccc-CHHHHhccchhhhccceeeecCCCCHHH
Confidence                        11   01112334556666432 2344567777777654 33333310   1443 357788889999


Q ss_pred             HHHHHHHhhchh
Q 035603          341 FKVLAKNYLEIE  352 (431)
Q Consensus       341 r~~i~~~~l~~~  352 (431)
                      ..+|+..-|...
T Consensus       581 Lq~Ii~~RL~~~  592 (767)
T KOG1514|consen  581 LQEIISARLKGL  592 (767)
T ss_pred             HHHHHHHhhcch
Confidence            999988877543

>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=96.72  E-value=0.0029  Score=58.59  Aligned_cols=39  Identities=18%  Similarity=0.287  Sum_probs=30.0

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEecccCc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL-NYDVYDLELTSV  263 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~~~~~  263 (431)
                      ..|.-+++-||||+|||+++..+...+ +-.++.++...+
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~   52 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF   52 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence            456789999999999999999999988 677788877665

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.72  E-value=0.0038  Score=61.99  Aligned_cols=51  Identities=14%  Similarity=0.161  Sum_probs=37.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++.+.-++++||||||||+++..+|...         +-.++.++..+--..+.+.++.
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~  150 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMA  150 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHH
Confidence            67877888999999999999999888653         2256667665533455555554

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.71  E-value=0.0018  Score=58.71  Aligned_cols=32  Identities=31%  Similarity=0.312  Sum_probs=24.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +|++||||||||+++..++.+.   |.+++.++..
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            6899999999999999887643   5566666543

A related protein is found in archaea.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.71  E-value=0.0036  Score=60.48  Aligned_cols=49  Identities=24%  Similarity=0.243  Sum_probs=36.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |+|..+.+|++|+||||||+++...+...   |.+++.++...  +..++.+.+
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e--~~~~l~~~~   70 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE--SPEELLENA   70 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC--CHHHHHHHH
Confidence            68888899999999999999998877533   66777776665  344444433

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.70  E-value=0.0021  Score=58.11  Aligned_cols=34  Identities=32%  Similarity=0.373  Sum_probs=26.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +.-+.|.|+||+|||++++++|..+   +.++..++.
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~   40 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDG   40 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcC
Confidence            4467899999999999999999987   334555544

>PRK12338 hypothetical protein; Provisional

Probab=96.68  E-value=0.0016  Score=64.67  Aligned_cols=30  Identities=30%  Similarity=0.337  Sum_probs=26.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      |.-+++.|+||||||++|+++|..+|+..+
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~~   33 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKHL   33 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeEE
Confidence            467899999999999999999999997654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.68  E-value=0.0023  Score=61.08  Aligned_cols=40  Identities=28%  Similarity=0.258  Sum_probs=31.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |++....+|++||||||||+++..++.+   -|-+.+.++...
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            7888889999999999999999876543   366676666543

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.68  E-value=0.0023  Score=60.73  Aligned_cols=39  Identities=26%  Similarity=0.318  Sum_probs=32.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~  261 (431)
                      |+|.+..++++||||||||+++..++.+   .|..++.++..
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e   62 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTE   62 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcC
Confidence            7888889999999999999999999754   36667666654

>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=96.68  E-value=0.0022  Score=62.25  Aligned_cols=56  Identities=23%  Similarity=0.379  Sum_probs=40.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .+.++++++..+...+.+.+.+.....           .+..+|+.||+|+|||++++++..++...
T Consensus        99 ~~~sle~l~~~~~~~~~~~~~l~~~v~-----------~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen   99 KPFSLEDLGESGSIPEEIAEFLRSAVR-----------GRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             S--CHCCCCHTHHCHHHHHHHHHHCHH-----------TTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             ccccHhhccCchhhHHHHHHHHhhccc-----------cceEEEEECCCccccchHHHHHhhhcccc
Confidence            345789988877766666555443332           24689999999999999999999987654

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 ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.67  E-value=0.0043  Score=60.58  Aligned_cols=60  Identities=27%  Similarity=0.220  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHHHHhCH-HHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          201 KKEAIKKDLIKFTEGK-EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~~-~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.+.+.+.+...+... ..+. .....++-++|.||||+|||+++..+|..+   |..+..+++.
T Consensus        46 ~~~~~~e~l~~~~~~~~~~~~-~~~~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D  109 (272)
T TIGR00064        46 LKEILKEYLKEILKETDLELI-VEENKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD  109 (272)
T ss_pred             HHHHHHHHHHHHHcccchhhc-ccCCCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            4455555555555431 1122 112335678899999999999999998766   5556555544

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.66  E-value=0.0016  Score=59.02  Aligned_cols=25  Identities=28%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -+++.||||+|||+++++|+..++.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCc
Confidence            4789999999999999999998764

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.

>PLN02165 adenylate isopentenyltransferase

Probab=96.65  E-value=0.0019  Score=64.46  Aligned_cols=34  Identities=18%  Similarity=0.394  Sum_probs=29.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      .-+.|.||+|+|||+|+..||..++..++..|..
T Consensus        44 ~iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs~   77 (334)
T PLN02165         44 KVVVIMGATGSGKSRLSVDLATRFPSEIINSDKM   77 (334)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHcCCceecCChh
Confidence            4588999999999999999999999888877654

>COG1485 Predicted ATPase [General function prediction only]

Probab=96.65  E-value=0.0062  Score=60.70  Aligned_cols=30  Identities=27%  Similarity=0.411  Sum_probs=25.1

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .+.++|+.||||=|+|||.|....-..+..
T Consensus        62 ~~~~~GlYl~GgVGrGKT~LMD~Fy~~lp~   91 (367)
T COG1485          62 HGPVRGLYLWGGVGRGKTMLMDLFYESLPG   91 (367)
T ss_pred             CCCCceEEEECCCCccHHHHHHHHHhhCCc
Confidence            456799999999999999999887776643

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.64  E-value=0.0031  Score=65.53  Aligned_cols=63  Identities=17%  Similarity=0.199  Sum_probs=40.9

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      .+.+.+.+.+...+.......... ..|.-++|+||||+|||+++..+|..+   |..+..+++...
T Consensus        69 ~~~~~v~~~L~~~l~~~~~~~~~~-~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~  134 (437)
T PRK00771         69 HVIKIVYEELVKLLGEETEPLVLP-LKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTY  134 (437)
T ss_pred             HHHHHHHHHHHHHhCCCccccccC-CCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCC
Confidence            445566666666554322111111 346789999999999999999999876   556666655444

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.64  E-value=0.0029  Score=62.61  Aligned_cols=25  Identities=28%  Similarity=0.577  Sum_probs=23.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ++++|+.||+|+|||++++++++++
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999999887

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.

>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]

Probab=96.61  E-value=0.0038  Score=54.80  Aligned_cols=39  Identities=26%  Similarity=0.346  Sum_probs=31.9

Q ss_pred             CCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHH
Q 035603          234 GPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLV  274 (431)
Q Consensus       234 GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~  274 (431)
                      |..|||||+++.++|..+|+.|++  ..++...+++.++-.
T Consensus         2 GVsG~GKStvg~~lA~~lg~~fid--GDdlHp~aNi~KM~~   40 (161)
T COG3265           2 GVSGSGKSTVGSALAERLGAKFID--GDDLHPPANIEKMSA   40 (161)
T ss_pred             CCCccCHHHHHHHHHHHcCCceec--ccccCCHHHHHHHhC
Confidence            889999999999999999988774  556667777776643

>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=96.60  E-value=0.0016  Score=58.94  Aligned_cols=22  Identities=36%  Similarity=0.782  Sum_probs=20.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ++|.|+||+||||+++.++..+
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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.59  E-value=0.0036  Score=56.80  Aligned_cols=35  Identities=20%  Similarity=0.184  Sum_probs=29.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -+|+.||||+|||++|..+|..++.+++.+.....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~   37 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQP   37 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCC
Confidence            47899999999999999999999888777665544

>PRK05973 replicative DNA helicase; Provisional

Probab=96.57  E-value=0.0029  Score=60.40  Aligned_cols=40  Identities=20%  Similarity=0.006  Sum_probs=31.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      |++...-+|+.|+||+|||+++-.+|.+.   |.+++.+++..
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEe  102 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEY  102 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeC
Confidence            67777789999999999999988776543   76766665544

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.57  E-value=0.0067  Score=60.45  Aligned_cols=51  Identities=16%  Similarity=0.131  Sum_probs=36.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---------cCCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---------LNYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---------l~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++++||||||||.|+..+|-.         .+-.++.++...--..+.+.++.
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a  151 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIA  151 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            6888888899999999999999877742         23466667655433455565553

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=96.56  E-value=0.0022  Score=59.44  Aligned_cols=32  Identities=25%  Similarity=0.228  Sum_probs=28.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -+.++||||+|||++++.++..+|+++++.|.
T Consensus         3 ~i~itG~~gsGKst~~~~l~~~~g~~~i~~D~   34 (195)
T PRK14730          3 RIGLTGGIASGKSTVGNYLAQQKGIPILDADI   34 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCeEeeCcH
Confidence            37899999999999999999988998887653

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=96.56  E-value=0.0059  Score=63.45  Aligned_cols=29  Identities=31%  Similarity=0.338  Sum_probs=26.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .|.-++++|+||||||+++..+|..+++.
T Consensus       254 ~p~vil~~G~~G~GKSt~a~~LA~~lg~~  282 (475)
T PRK12337        254 RPLHVLIGGVSGVGKSVLASALAYRLGIT  282 (475)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCc
Confidence            46788999999999999999999999986

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.56  E-value=0.0047  Score=65.30  Aligned_cols=39  Identities=21%  Similarity=0.222  Sum_probs=31.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH----cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC----LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~----l~~~i~~l~~~  261 (431)
                      |+|..+.+|+.||||||||+|+..++.+    .|-+.+.++..
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e   59 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE   59 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            7888999999999999999999987432    25676666553

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK05439 pantothenate kinase; Provisional

Probab=96.55  E-value=0.021  Score=56.69  Aligned_cols=37  Identities=19%  Similarity=0.046  Sum_probs=27.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC-----CCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN-----YDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~-----~~i~~l~~~~~  263 (431)
                      +.-+.+.||||+||||+|+.|+..++     ..+..+...+.
T Consensus        86 ~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdF  127 (311)
T PRK05439         86 PFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGF  127 (311)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEecccc
Confidence            34567899999999999999998764     23555555444

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.54  E-value=0.022  Score=56.55  Aligned_cols=144  Identities=17%  Similarity=0.176  Sum_probs=80.5

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHH-HHH--HHcCCCeEEecccCc-CC-hHHH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMA--NCLNYDVYDLELTSV-EN-NNEL  269 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~-aiA--~~l~~~i~~l~~~~~-~~-~~~l  269 (431)
                      +.|..+..+.|.+.++.-.-..         -...+++.||.|+|||.++. .++  .+.|-+++.+.+... .+ .-.+
T Consensus        26 l~g~~~~~~~l~~~lkqt~~~g---------EsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al   96 (408)
T KOG2228|consen   26 LFGVQDEQKHLSELLKQTILHG---------ESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIAL   96 (408)
T ss_pred             eeehHHHHHHHHHHHHHHHHhc---------CCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHH
Confidence            3455555666655554443321         24689999999999999766 333  477888877766543 22 1122


Q ss_pred             HHHHHHhhhc-------ccchhhHHHHHH----------------------------------HHhcCcccCCCCceEEE
Q 035603          270 RSLLVDISSK-------KKKSNVTLSGLL----------------------------------NCIGGLWSTCGGERIIV  308 (431)
Q Consensus       270 ~~l~~~~~~~-------~~~~~~~~s~lL----------------------------------~~ldg~~~~~~~~~ivI  308 (431)
                      +.+-.+....       ......+++.||                                  |.+|-..++ ..++-||
T Consensus        97 ~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~-r~Picii  175 (408)
T KOG2228|consen   97 KGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSA-RAPICII  175 (408)
T ss_pred             HHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhc-CCCeEEE
Confidence            2222111100       111122233333                                  333333222 2346677


Q ss_pred             EecCCCCC---CChhhhccCceeEE-EEcCCC-CHHHHHHHHHHhhc
Q 035603          309 FTTNHVDK---LDPALIRRGRMDKH-IEMPYC-CFEAFKVLAKNYLE  350 (431)
Q Consensus       309 ~TTN~~~~---Ld~AllRpGRfd~~-I~~~~p-~~~~r~~i~~~~l~  350 (431)
                      +.|.+.+.   |..-+..  ||... |+|+++ ..++..++++..+.
T Consensus       176 g~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  176 GVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             EeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHhc
Confidence            77766554   4566666  88655 777665 57888889888874

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.53  E-value=0.0012  Score=61.05  Aligned_cols=28  Identities=32%  Similarity=0.577  Sum_probs=24.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      =++|.|+||+|||++++-+|++|.-.+.
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~~~i~   30 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELRQEIW   30 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHHHhhh
Confidence            3789999999999999999999865443

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=96.53  E-value=0.0019  Score=58.12  Aligned_cols=27  Identities=30%  Similarity=0.470  Sum_probs=23.3

Q ss_pred             eCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          233 FGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       233 ~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .||||||||++++++|..++..+++-+
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~~~~~d   27 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAAFLDGD   27 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCeEEeCc
Confidence            399999999999999999997666554

>PRK13975 thymidylate kinase; Provisional

Probab=96.53  E-value=0.0036  Score=57.50  Aligned_cols=27  Identities=30%  Similarity=0.284  Sum_probs=24.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +-+.|.||+|+||||+++.+|..++..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~~   29 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNAF   29 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            347899999999999999999999864

>PTZ00301 uridine kinase; Provisional

Probab=96.49  E-value=0.053  Score=50.89  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=19.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.+.||||+||||+|+.|+..+
T Consensus         6 IgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          6 IGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             EEEECCCcCCHHHHHHHHHHHH
Confidence            5688999999999999998876

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.48  E-value=0.0085  Score=60.39  Aligned_cols=51  Identities=14%  Similarity=0.116  Sum_probs=36.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-+.++||||||||+|+..+|-..         +-.++.++...--..+.+.++.
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia  181 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIA  181 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHH
Confidence            67877788999999999999999887422         2456666665533455665554

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=96.48  E-value=0.013  Score=60.81  Aligned_cols=64  Identities=16%  Similarity=0.180  Sum_probs=54.1

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      ...+..|+|......++.+.+..-..+           .-.+||.|..||||..+|++|-...   +.+|+.+||..+
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~VA~S-----------d~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAl  285 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVVAKS-----------DSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAAL  285 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHHhcC-----------CCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeecccc
Confidence            356889999999999998888665543           3579999999999999999998866   468999999987

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.47  E-value=0.0057  Score=58.20  Aligned_cols=37  Identities=27%  Similarity=0.279  Sum_probs=27.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      |++...-+++.||||||||+++..++..+   |..++.++
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            57777889999999999999975554433   45555555

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.45  E-value=0.0066  Score=55.01  Aligned_cols=43  Identities=21%  Similarity=0.238  Sum_probs=32.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      +|+.||||+|||++|..+|...+.+++.+...... ..++++.+
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~-d~em~~rI   44 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAF-DDEMAERI   44 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcC-CHHHHHHH
Confidence            68999999999999999998877777777555432 33444443

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.

>PTZ00035 Rad51 protein; Provisional

Probab=96.44  E-value=0.013  Score=59.08  Aligned_cols=51  Identities=16%  Similarity=0.126  Sum_probs=35.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-+.++||||||||+|+..+|....         -.++.++....-..+.+..+.
T Consensus       114 Gi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~ia  173 (337)
T PTZ00035        114 GIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIA  173 (337)
T ss_pred             CCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHHH
Confidence            677777889999999999999998875433         345556554433445555554

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=96.42  E-value=0.0033  Score=62.40  Aligned_cols=35  Identities=20%  Similarity=0.422  Sum_probs=30.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      ++-+++.||+|||||++|..||.+++..++..|..
T Consensus         4 ~~~i~i~GptgsGKt~la~~la~~~~~~iis~Ds~   38 (307)
T PRK00091          4 PKVIVIVGPTASGKTALAIELAKRLNGEIISADSM   38 (307)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHhCCCcEEecccc
Confidence            35688999999999999999999999888776653

>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=96.42  E-value=0.0036  Score=56.42  Aligned_cols=34  Identities=32%  Similarity=0.368  Sum_probs=27.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      +++.||||+|||++++.+|..+   +..+..+++...
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~   39 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTY   39 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence            6889999999999999998765   666776665543

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.

>PRK09354 recA recombinase A; Provisional

Probab=96.41  E-value=0.0053  Score=61.79  Aligned_cols=40  Identities=18%  Similarity=0.199  Sum_probs=31.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHH---HcCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~---~l~~~i~~l~~~~  262 (431)
                      |+|..+-+++|||||||||+|+-.++.   ..|-..+.++...
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~   98 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   98 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence            677778899999999999999987654   3466666666654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.41  E-value=0.0039  Score=62.27  Aligned_cols=60  Identities=25%  Similarity=0.237  Sum_probs=37.0

Q ss_pred             hhHHHHHHHHHHHHhC-HHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          200 KKKEAIKKDLIKFTEG-KEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~-~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .+++.+.+.+...+.. ...+. .....+.-++|.||||+||||++..||..+   +..+..++.
T Consensus        87 ~~~~~l~~~l~~~l~~~~~~~~-~~~~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~  150 (318)
T PRK10416         87 ELKELLKEELAEILEPVEKPLN-IEEKKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAG  150 (318)
T ss_pred             HHHHHHHHHHHHHhCcCCcccc-ccCCCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence            3455555555555541 11111 112235668899999999999999999876   445554443

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.41  E-value=0.0031  Score=58.36  Aligned_cols=27  Identities=33%  Similarity=0.404  Sum_probs=24.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+.-+.|.||+|+|||+|++.|++.++
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            456789999999999999999999876

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.40  E-value=0.0055  Score=60.15  Aligned_cols=36  Identities=28%  Similarity=0.365  Sum_probs=28.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc----C-CCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL----N-YDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l----~-~~i~~l~~~~  262 (431)
                      ++.++|.||+|+|||+++..+|..+    | ..+..++...
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            4568899999999999999999866    3 5666665544

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.38  E-value=0.004  Score=57.06  Aligned_cols=26  Identities=27%  Similarity=0.593  Sum_probs=23.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +..+++.||+|+|||++++++++.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            56799999999999999999999775

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.38  E-value=0.006  Score=63.07  Aligned_cols=62  Identities=18%  Similarity=0.244  Sum_probs=39.7

Q ss_pred             hhHHHHHHHHHHHHhCH-HHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          200 KKKEAIKKDLIKFTEGK-EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~-~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .+++.+.+.+...+... ..+. .....+.-++|.||+|+||||++..+|..+   |..+..+++..
T Consensus        73 ~v~~~v~~~L~~~l~~~~~~~~-~~~~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~  138 (429)
T TIGR01425        73 MIQHAVFKELCNLVDPGVEAFT-PKKGKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADT  138 (429)
T ss_pred             HHHHHHHHHHHHHhCCCCcccc-ccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence            45566666666655421 1111 111224678999999999999999999876   66666665543

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

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=96.38  E-value=0.0035  Score=57.95  Aligned_cols=31  Identities=35%  Similarity=0.330  Sum_probs=27.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -+.|+|++|||||++++.++. +|+++++.|.
T Consensus         4 ~i~ltG~~gsGKst~~~~l~~-~g~~~i~~D~   34 (194)
T PRK00081          4 IIGLTGGIGSGKSTVANLFAE-LGAPVIDADA   34 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEEecH
Confidence            588999999999999999998 8988887764

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.37  E-value=0.0048  Score=58.63  Aligned_cols=40  Identities=18%  Similarity=0.188  Sum_probs=32.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      |+++..-++|.||||+|||+++..+|...    +.+++.+++..
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~   52 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEM   52 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCC
Confidence            77877889999999999999998887643    77877777655

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=96.37  E-value=0.072  Score=50.86  Aligned_cols=117  Identities=11%  Similarity=0.067  Sum_probs=82.5

Q ss_pred             CceeEEeCCCC-CcHHHHHHHHHHHcCC---------CeEEecccC-------cCChHHHHHHHHHhhhc----------
Q 035603          227 KRGYLLFGPPG-TGKSTMIAAMANCLNY---------DVYDLELTS-------VENNNELRSLLVDISSK----------  279 (431)
Q Consensus       227 ~rg~LL~GPPG-tGKTsla~aiA~~l~~---------~i~~l~~~~-------~~~~~~l~~l~~~~~~~----------  279 (431)
                      ...|||.|..+ +||.-++.-++..+.+         +++.+....       .-+.+.+|++.......          
T Consensus        15 shAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~~g~~KViI   94 (263)
T PRK06581         15 YNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLSKTSAISGYKVAI   94 (263)
T ss_pred             hheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHHhhCcccCCcEEEE
Confidence            35899999998 9999998888876633         455554321       11345667665444322          


Q ss_pred             ----ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          280 ----KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       280 ----~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                          +.-.....+.||..++.    ++...++|.+|+.++.|.|.+++  |. ..+.++.|....-.++...++.
T Consensus        95 I~~ae~mt~~AANALLKtLEE----PP~~t~fILit~~~~~LLpTIrS--RC-q~i~~~~p~~~~~~e~~~~~~~  162 (263)
T PRK06581         95 IYSAELMNLNAANSCLKILED----APKNSYIFLITSRAASIISTIRS--RC-FKINVRSSILHAYNELYSQFIQ  162 (263)
T ss_pred             EechHHhCHHHHHHHHHhhcC----CCCCeEEEEEeCChhhCchhHhh--ce-EEEeCCCCCHHHHHHHHHHhcc
Confidence                33345678889999884    45668999999999999999998  44 6788998888776666665554

>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=96.36  E-value=0.0032  Score=66.49  Aligned_cols=32  Identities=28%  Similarity=0.452  Sum_probs=29.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+.|.|+||||||++++.+|..+++++++.|.
T Consensus         2 ~I~l~G~~GsGKSTv~~~La~~lg~~~id~D~   33 (488)
T PRK13951          2 RIFLVGMMGSGKSTIGKRVSEVLDLQFIDMDE   33 (488)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCeEEECcH
Confidence            37899999999999999999999999998764

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=96.36  E-value=0.021  Score=57.02  Aligned_cols=123  Identities=17%  Similarity=0.208  Sum_probs=83.4

Q ss_pred             ceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEE
Q 035603          181 WSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYD  257 (431)
Q Consensus       181 w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~  257 (431)
                      -..+.+.+-..|+.+++.....+.+.+....+-.           ..-.+|+.|..||||-.+|+|.-...   ..+|+.
T Consensus       192 ~~~~~~~~~~~F~~~v~~S~~mk~~v~qA~k~Am-----------lDAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFla  260 (511)
T COG3283         192 LQNVAAQDVSGFEQIVAVSPKMKHVVEQAQKLAM-----------LDAPLLITGETGTGKDLLAKACHLASPRHSKPFLA  260 (511)
T ss_pred             HhhcccccccchHHHhhccHHHHHHHHHHHHhhc-----------cCCCeEEecCCCchHHHHHHHHhhcCcccCCCeeE
Confidence            3445666778899999998887777765544432           22458999999999999999876543   568999


Q ss_pred             ecccCcCChHHHHHHHHHhhhc--------------------ccchhhHHHHHHHHh-cCcccCCCC------ceEEEEe
Q 035603          258 LELTSVENNNELRSLLVDISSK--------------------KKKSNVTLSGLLNCI-GGLWSTCGG------ERIIVFT  310 (431)
Q Consensus       258 l~~~~~~~~~~l~~l~~~~~~~--------------------~~~~~~~~s~lL~~l-dg~~~~~~~------~~ivI~T  310 (431)
                      +||.++-.+..=.++|..+...                    ...+......||.++ ||....-|+      ++=||+|
T Consensus       261 lNCA~lPe~~aEsElFG~apg~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIca  340 (511)
T COG3283         261 LNCASLPEDAAESELFGHAPGDEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICA  340 (511)
T ss_pred             eecCCCchhHhHHHHhcCCCCCCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEec
Confidence            9999985554445666655532                    233455566788877 454333332      3568888


Q ss_pred             cCCC
Q 035603          311 TNHV  314 (431)
Q Consensus       311 TN~~  314 (431)
                      |..+
T Consensus       341 tq~n  344 (511)
T COG3283         341 TQVN  344 (511)
T ss_pred             cccc
Confidence            8653

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=96.36  E-value=0.013  Score=58.07  Aligned_cols=56  Identities=20%  Similarity=0.181  Sum_probs=38.1

Q ss_pred             ccccc-ChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          193 DTLAM-ASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       193 ~~l~g-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      +++.. ++++++-+.+.+-.-+..       ..+..+.++|+|+.|+|||++...|..-+|-..
T Consensus        48 ~~~~~~d~~~~~~l~~~lg~~L~~-------~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~  104 (304)
T TIGR01613        48 LETFGGDNELIEYLQRVIGYSLTG-------NYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYA  104 (304)
T ss_pred             HHHhCCCHHHHHHHHHHHhHHhcC-------CCCceEEEEEECCCCCcHHHHHHHHHHHhChhh
Confidence            44433 445555555544433332       145567899999999999999999999888543

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.36  E-value=0.0058  Score=62.01  Aligned_cols=24  Identities=38%  Similarity=0.542  Sum_probs=21.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-+++.||+|+||||+++++++++
T Consensus       135 glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       135 GIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999886

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK08356 hypothetical protein; Provisional

Probab=96.36  E-value=0.0036  Score=57.81  Aligned_cols=27  Identities=15%  Similarity=0.052  Sum_probs=22.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      -++|.||||+||||+|+.|+ +.|+..+
T Consensus         7 ~i~~~G~~gsGK~t~a~~l~-~~g~~~i   33 (195)
T PRK08356          7 IVGVVGKIAAGKTTVAKFFE-EKGFCRV   33 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHH-HCCCcEE
Confidence            47899999999999999996 4677643

>PRK06761 hypothetical protein; Provisional

Probab=96.35  E-value=0.0035  Score=61.34  Aligned_cols=33  Identities=30%  Similarity=0.452  Sum_probs=27.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +-+++.||||+||||+++.++..++...+.++.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~   36 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL   36 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence            458899999999999999999999865555443

>TIGR00017 cmk cytidylate kinase

Probab=96.35  E-value=0.0036  Score=59.07  Aligned_cols=30  Identities=40%  Similarity=0.517  Sum_probs=26.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+-+.||+||||||+++.||..+++.+++-
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~~   33 (217)
T TIGR00017         4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLDS   33 (217)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceeeC
Confidence            467899999999999999999999887753

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.34  E-value=0.038  Score=57.39  Aligned_cols=36  Identities=31%  Similarity=0.396  Sum_probs=27.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~~~~  262 (431)
                      ++.++|.||+|+||||++..||..+     +..+..++...
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            4578899999999999999998754     34566555543

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=96.33  E-value=0.01  Score=62.96  Aligned_cols=155  Identities=18%  Similarity=0.252  Sum_probs=91.2

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCC--ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC----cC-
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWK--RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS----VE-  264 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~--rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~----~~-  264 (431)
                      |-.|.|.+.+|.-|.   ...+.+-..+..-|.+.+  -.+++.|.||||||-+.++.++.+...+|..--.+    +. 
T Consensus       344 ~PsIyGhe~VK~Gil---L~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTa  420 (764)
T KOG0480|consen  344 FPSIYGHELVKAGIL---LSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTA  420 (764)
T ss_pred             CccccchHHHHhhHH---HHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceE
Confidence            567788888888873   333443333343344443  24899999999999999999999988888653221    10 


Q ss_pred             ---ChHHHHHHHHHhhhc----------ccch---hhHHHHHHHHhcC---------cccCCCCceEEEEecCCCC----
Q 035603          265 ---NNNELRSLLVDISSK----------KKKS---NVTLSGLLNCIGG---------LWSTCGGERIIVFTTNHVD----  315 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~----------~~~~---~~~~s~lL~~ldg---------~~~~~~~~~ivI~TTN~~~----  315 (431)
                         ..++--+...++...          ++..   ....-.++.+|..         +...-+...-|++++|...    
T Consensus       421 aVvkD~esgdf~iEAGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv~GhYd  500 (764)
T KOG0480|consen  421 AVVKDEESGDFTIEAGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPVGGHYD  500 (764)
T ss_pred             EEEecCCCCceeeecCcEEEccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCcCCccc
Confidence               000001111111111          1111   1123345555542         2211122234788888652    


Q ss_pred             ---------CCChhhhccCceeEE-EEcCCCCHHHHHHHHHHhhch
Q 035603          316 ---------KLDPALIRRGRMDKH-IEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       316 ---------~Ld~AllRpGRfd~~-I~~~~p~~~~r~~i~~~~l~~  351 (431)
                               +++++++.  |||.. |-+.-|+...=..|.++.+..
T Consensus       501 R~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIld~  544 (764)
T KOG0480|consen  501 RKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHILDL  544 (764)
T ss_pred             cccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHHHH
Confidence                     47899999  99976 567889987777777776643

>PRK10867 signal recognition particle protein; Provisional

Probab=96.32  E-value=0.0064  Score=63.12  Aligned_cols=63  Identities=16%  Similarity=0.246  Sum_probs=40.2

Q ss_pred             hhHHHHHHHHHHHHhCH-HHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccCc
Q 035603          200 KKKEAIKKDLIKFTEGK-EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTSV  263 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~-~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~~  263 (431)
                      .+.+.+.+.+...+... ..+. .....|.-+++.||||+||||++..+|..+    |..+..+++...
T Consensus        73 ~~~~~v~~el~~~l~~~~~~~~-~~~~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~  140 (433)
T PRK10867         73 QVIKIVNDELVEILGGENSELN-LAAKPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVY  140 (433)
T ss_pred             HHHHHHHHHHHHHhCCCcceee-ecCCCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcccc
Confidence            35555555666655421 1111 122336788999999999999888888754    666766666544

>PRK00023 cmk cytidylate kinase; Provisional

Probab=96.31  E-value=0.0031  Score=59.78  Aligned_cols=33  Identities=27%  Similarity=0.395  Sum_probs=28.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .-+.+.||||||||++++.+|..+|+++++.+.
T Consensus         5 ~~i~i~g~~gsGksti~~~la~~~~~~~~~~~~   37 (225)
T PRK00023          5 IVIAIDGPAGSGKGTVAKILAKKLGFHYLDTGA   37 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcccCch
Confidence            457889999999999999999999998876543

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.31  E-value=0.0031  Score=57.05  Aligned_cols=26  Identities=31%  Similarity=0.402  Sum_probs=22.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +-++|.||+|+|||++++.|++.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccCcc
Confidence            35789999999999999999997654

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.31  E-value=0.0041  Score=56.79  Aligned_cols=34  Identities=26%  Similarity=0.404  Sum_probs=26.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSV  263 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~  263 (431)
                      +.+.|+||||||++++.|+..++   .++..++..+.
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf   38 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDY   38 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhc
Confidence            57899999999999999999874   55555554443

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.30  E-value=0.0038  Score=58.94  Aligned_cols=38  Identities=24%  Similarity=0.139  Sum_probs=29.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      |++....+++.||||||||+++..++...   +..++.++.
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            67778889999999999999999876532   445555544

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.30  E-value=0.0053  Score=57.17  Aligned_cols=34  Identities=18%  Similarity=0.166  Sum_probs=26.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC-CeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY-DVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~-~i~~l~~  260 (431)
                      +.-+.+.||||||||||+++|+..++. .+..++.
T Consensus         6 ~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~   40 (209)
T PRK05480          6 PIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQ   40 (209)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeC
Confidence            345789999999999999999999842 3444443

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.29  E-value=0.0029  Score=58.38  Aligned_cols=23  Identities=39%  Similarity=0.660  Sum_probs=21.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-+.||||+||||+|++|+..|+
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            56899999999999999999997

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 ....

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.28  E-value=0.0045  Score=46.38  Aligned_cols=23  Identities=43%  Similarity=0.722  Sum_probs=20.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..+|+||.|+|||++..||.-.+
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            38999999999999999997654

>TIGR00235 udk uridine kinase

Probab=96.28  E-value=0.0037  Score=58.29  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .-+.+.||+|+|||||+++|++.++.
T Consensus         7 ~vi~I~G~sGsGKSTl~~~l~~~l~~   32 (207)
T TIGR00235         7 IIIGIGGGSGSGKTTVARKIYEQLGK   32 (207)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            34568999999999999999998763

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK04328 hypothetical protein; Provisional

Probab=96.27  E-value=0.004  Score=59.93  Aligned_cols=40  Identities=28%  Similarity=0.254  Sum_probs=30.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |+|.+..+|++||||||||+|+..++.+   -|-+.+.++...
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            6888888999999999999998876543   355666665544

>PLN02842 nucleotide kinase

Probab=96.27  E-value=0.027  Score=59.37  Aligned_cols=27  Identities=19%  Similarity=0.335  Sum_probs=24.5

Q ss_pred             EEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          231 LLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       231 LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ++.||||+||||+++.||+.+++..+.
T Consensus         1 ~I~G~PGSGKSTqa~~Lak~lg~~hIs   27 (505)
T PLN02842          1 MISGAPASGKGTQCELIVHKFGLVHIS   27 (505)
T ss_pred             CeeCCCCCCHHHHHHHHHHHhCCCEEE
Confidence            578999999999999999999987665

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.26  E-value=0.0062  Score=57.38  Aligned_cols=40  Identities=20%  Similarity=0.166  Sum_probs=31.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |+|...-+++.||||+|||+++..+|..   .|.+++.++...
T Consensus        12 Gi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~   54 (224)
T TIGR03880        12 GFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE   54 (224)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            6777888999999999999999988753   266666666544

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.26  E-value=0.0065  Score=60.68  Aligned_cols=25  Identities=24%  Similarity=0.446  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +..+|+.||+|+||||+++|++.++
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999999876

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2

Probab=96.26  E-value=0.0026  Score=56.76  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=24.2

Q ss_pred             CCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          236 PGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       236 PGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      ||+|||++++.+|..|+++|+++|..
T Consensus         1 ~GsGKStvg~~lA~~L~~~fiD~D~~   26 (158)
T PF01202_consen    1 MGSGKSTVGKLLAKRLGRPFIDLDDE   26 (158)
T ss_dssp             TTSSHHHHHHHHHHHHTSEEEEHHHH
T ss_pred             CCCcHHHHHHHHHHHhCCCccccCHH
Confidence            79999999999999999999998753

7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....

>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=96.25  E-value=0.0046  Score=56.37  Aligned_cols=45  Identities=29%  Similarity=0.410  Sum_probs=31.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc-CChHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV-ENNNELRSLLV  274 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~-~~~~~l~~l~~  274 (431)
                      +.|.||+|+||||+++.||+.+   |..++.+....- .....+++++.
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~   51 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGGTPIGEAIRELLL   51 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCCchHHHHHHHHh
Confidence            6788999999999999999988   666655543221 12344555543

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.23  E-value=0.0055  Score=56.52  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.|.||+|+|||+++++|++.+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999987

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.23  E-value=0.016  Score=57.77  Aligned_cols=51  Identities=16%  Similarity=0.121  Sum_probs=34.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++++||||+|||+++..+|....         -.++.++....-....+..+.
T Consensus        92 Gi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~~ia  151 (316)
T TIGR02239        92 GIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIA  151 (316)
T ss_pred             CCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHHHHH
Confidence            677777889999999999999998875321         245566655533344454443

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.23  E-value=0.0085  Score=61.04  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=21.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .+|+.||+|+||||++++++.++
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i  173 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHC  173 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999877

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.22  E-value=0.0045  Score=53.95  Aligned_cols=25  Identities=32%  Similarity=0.606  Sum_probs=22.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +.|.||+|+|||++++.|+..+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCcc
Confidence            5789999999999999999987644

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=96.20  E-value=0.0041  Score=68.87  Aligned_cols=30  Identities=37%  Similarity=0.526  Sum_probs=26.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+.+-|||||||||+++.||..+|+.+++.
T Consensus         3 ~i~I~G~~GsGKST~ak~la~~l~~~~~~~   32 (712)
T PRK09518          3 IVAIDGPAGVGKSSVSRALAQYLGYAYLDT   32 (712)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeec
Confidence            367899999999999999999999887754

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.20  E-value=0.056  Score=53.26  Aligned_cols=26  Identities=23%  Similarity=0.180  Sum_probs=21.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      |.-+-+.||+|+||||+++.|+..+.
T Consensus        62 p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        62 PYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44566899999999999999988764

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.19  E-value=0.018  Score=58.05  Aligned_cols=51  Identities=12%  Similarity=0.087  Sum_probs=36.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++++||||+|||+++..+|-...         -.++.++...--..+++.++.
T Consensus       119 G~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia  178 (342)
T PLN03186        119 GIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIA  178 (342)
T ss_pred             CCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHH
Confidence            677777789999999999999998774321         256666665543455566554

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=96.19  E-value=0.0051  Score=60.40  Aligned_cols=33  Identities=24%  Similarity=0.505  Sum_probs=29.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      +++.||+|+|||+++..+|..++..++.+|...
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~~iis~Ds~q   34 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNAEIISVDSMQ   34 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcEEEechhh
Confidence            678999999999999999999999888876543

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.19  E-value=0.0047  Score=52.93  Aligned_cols=29  Identities=34%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ...-++|+|+=|+|||+++|++|..+|.+
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            34678999999999999999999999864

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.18  E-value=0.0041  Score=58.10  Aligned_cols=25  Identities=28%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .++-++|.||||+|||+|+++++..
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4567889999999999999999854

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.17  E-value=0.0039  Score=57.83  Aligned_cols=24  Identities=50%  Similarity=0.747  Sum_probs=21.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -+++.||+|+||||++++++.++.
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            367899999999999999998875

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.17  E-value=0.013  Score=60.36  Aligned_cols=61  Identities=23%  Similarity=0.272  Sum_probs=35.7

Q ss_pred             hHHHHHHHHHHHHhC-HHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEeccc
Q 035603          201 KKEAIKKDLIKFTEG-KEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELT  261 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~-~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~  261 (431)
                      +.+.+.+.+...+.. ...+...|...++-++|.||+|+||||++..+|..+    |..+..+++.
T Consensus       196 ~~~~l~~~L~~~l~~~~~~~~~~g~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~D  261 (432)
T PRK12724        196 VTERAVTYLEERVSVDSDLFSGTGKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTD  261 (432)
T ss_pred             HHHHHHHHHHHhcccchhhhhhcccCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEeccc
Confidence            444455555444432 111222222234568899999999999999999754    4445544443

>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=96.17  E-value=0.0038  Score=57.98  Aligned_cols=26  Identities=42%  Similarity=0.623  Sum_probs=22.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      |+-++|.||+|+||||.+..||..+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~   26 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLK   26 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHh
Confidence            46789999999999999999987653

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 ....

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.019  Score=52.51  Aligned_cols=26  Identities=31%  Similarity=0.561  Sum_probs=22.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -.+.+.||.|+|||||.|.||+-+..
T Consensus        29 e~~~i~G~NG~GKTtLLRilaGLl~p   54 (209)
T COG4133          29 EALQITGPNGAGKTTLLRILAGLLRP   54 (209)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcccCC
Confidence            35678899999999999999997653

>PRK10646 ADP-binding protein; Provisional

Probab=96.15  E-value=0.012  Score=52.24  Aligned_cols=28  Identities=25%  Similarity=0.400  Sum_probs=25.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +.-++|.|+=|+|||+++|++|+.+|.+
T Consensus        28 g~vi~L~GdLGaGKTtf~rgl~~~Lg~~   55 (153)
T PRK10646         28 ATVIYLYGDLGAGKTTFSRGFLQALGHQ   55 (153)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3468999999999999999999999863

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.14  E-value=0.0088  Score=55.42  Aligned_cols=36  Identities=42%  Similarity=0.600  Sum_probs=26.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .+..++.||||||||+++++++..+   +..++.+..+.
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~   56 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTN   56 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSH
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcH
Confidence            3578899999999999999987644   56666665554

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.14  E-value=0.0082  Score=61.31  Aligned_cols=58  Identities=24%  Similarity=0.265  Sum_probs=38.3

Q ss_pred             hhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          199 SKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .++++.+.+.+...+..+..+    ...++-++|.||+|+||||++..||..+   |..+..+++
T Consensus       217 ~~~~~~l~~~l~~~l~~~~~~----~~~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~a  277 (436)
T PRK11889        217 EEVIEYILEDMRSHFNTENVF----EKEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT  277 (436)
T ss_pred             HHHHHHHHHHHHHHhcccccc----ccCCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEec
Confidence            456666666666655543221    1224678999999999999999999866   344444443

>PRK14974 cell division protein FtsY; Provisional

Probab=96.11  E-value=0.009  Score=60.03  Aligned_cols=60  Identities=28%  Similarity=0.335  Sum_probs=36.7

Q ss_pred             hHHHHHHHHHHHHhCHHHHHH---h-CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          201 KKEAIKKDLIKFTEGKEYYAK---I-GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~~~~~~~---~-g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +++.+.+.+...+....++.-   . ....++-++|.||||+||||+++.+|..+   |..+..++.
T Consensus       110 ~~~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~  176 (336)
T PRK14974        110 VKNALKEALLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAG  176 (336)
T ss_pred             HHHHHHHHHHHHhCCCcchhhhhhhhccCCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecC
Confidence            455556656555543221110   0 11225678999999999999999998765   445554543

>PLN02840 tRNA dimethylallyltransferase

Probab=96.08  E-value=0.0069  Score=62.37  Aligned_cols=33  Identities=27%  Similarity=0.478  Sum_probs=29.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .-+++.||+|+|||+++..||..++..++.+|.
T Consensus        22 ~vi~I~GptgsGKTtla~~La~~~~~~iis~Ds   54 (421)
T PLN02840         22 KVIVISGPTGAGKSRLALELAKRLNGEIISADS   54 (421)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHCCCCeEeccc
Confidence            357899999999999999999999988877664

>PRK14733 coaE dephospho-CoA kinase; Provisional

Probab=96.07  E-value=0.0066  Score=56.70  Aligned_cols=34  Identities=24%  Similarity=0.173  Sum_probs=29.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      .-+-|+|++|||||++++.++.++|+++++.|..
T Consensus         7 ~~IglTG~iGsGKStv~~~l~~~lg~~vidaD~i   40 (204)
T PRK14733          7 YPIGITGGIASGKSTATRILKEKLNLNVVCADTI   40 (204)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHcCCeEEeccHH
Confidence            3577999999999999999999999998877643

>PTZ00494 tuzin-like protein; Provisional

Probab=96.06  E-value=0.14  Score=53.07  Aligned_cols=48  Identities=10%  Similarity=0.167  Sum_probs=40.7

Q ss_pred             HHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          216 KEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       216 ~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      +..++++...+||-+.|.|..|||||++++.--...+.+.+.+|....
T Consensus       384 RqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~paV~VDVRg~  431 (664)
T PTZ00494        384 RSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVALVHVDVGGT  431 (664)
T ss_pred             HHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCCeEEEEecCC
Confidence            356777889999999999999999999999888888888777766543

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.04  E-value=0.0077  Score=62.98  Aligned_cols=39  Identities=31%  Similarity=0.294  Sum_probs=31.3

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |++...-+||+||||+|||+|+..+|...   +.+++.++..
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            67777788999999999999999998755   5666666543

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.04  E-value=0.0077  Score=55.74  Aligned_cols=35  Identities=29%  Similarity=0.328  Sum_probs=27.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .+.-+.|.|+||+|||+++++|+..+   +...+.++.
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~   60 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDG   60 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcC
Confidence            34567899999999999999999987   444555554

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.04  E-value=0.011  Score=57.59  Aligned_cols=50  Identities=28%  Similarity=0.365  Sum_probs=35.7

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.++++++..++..+.|.+.+    ..          ....+++.||+|+||||+++++..++.
T Consensus        56 ~~~l~~lg~~~~~~~~l~~~~----~~----------~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          56 ILDLEKLGLKPENLEIFRKLL----EK----------PHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             CCCHHHcCCCHHHHHHHHHHH----hc----------CCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            356888888877766553322    11          122478999999999999999987764

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.

>PF06431 Polyoma_lg_T_C: Polyomavirus large T antigen C-terminus; InterPro: IPR010932 The group of polyomaviruses is formed by the homonymous murine virus (Py) as well as other representative members such as the simian virus 40 (SV40) and the human BK and JC viruses []

Probab=96.03  E-value=0.011  Score=59.15  Aligned_cols=125  Identities=21%  Similarity=0.224  Sum_probs=66.0

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHH-------HHH
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNEL-------RSL  272 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l-------~~l  272 (431)
                      +..+.|.+.+.....        ++|.+|.+||-||-.|||||+|.|+-..+|-....+|+..-.-+-+|       .-+
T Consensus       136 ~~~~~i~~iL~~lv~--------N~PKkRy~lFkGPvNsGKTTlAAAlLdL~gG~~LNvN~p~dkl~FELG~AiDQfmVv  207 (417)
T PF06431_consen  136 NFDDVILEILKCLVE--------NIPKKRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLNFELGCAIDQFMVV  207 (417)
T ss_dssp             THHHHHHHHHHHHHH--------TBTTB-EEEEE-STTSSHHHHHHHHHHHH-EEEE-TSS-TTTHHHHHCCCTT-SEEE
T ss_pred             chHHHHHHHHHHHhc--------CCCcceeEEEecCcCCchHHHHHHHHHhcCCceeecCCChhhcchhhheeeceEEEE
Confidence            344455555555444        46889999999999999999999999988876666665532100000       001


Q ss_pred             HHHhhhc--------ccchhhHHHHHHHHhcCcccC-----CCCce-----EEEEecCCCCCCChhhhccCceeEEEEcC
Q 035603          273 LVDISSK--------KKKSNVTLSGLLNCIGGLWST-----CGGER-----IIVFTTNHVDKLDPALIRRGRMDKHIEMP  334 (431)
Q Consensus       273 ~~~~~~~--------~~~~~~~~s~lL~~ldg~~~~-----~~~~~-----ivI~TTN~~~~Ld~AllRpGRfd~~I~~~  334 (431)
                      |.+..+.        .+..-..+..|-+.|||...-     ....+     --|.|.|. ..||..+.-  ||-..+.|.
T Consensus       208 FEDVKGq~~~~~~Lp~G~G~~NLDNLRD~LDG~V~VNLErKH~NK~sQiFPPgIvTmNe-Y~iP~Tv~v--Rf~~~~~F~  284 (417)
T PF06431_consen  208 FEDVKGQPSDNKDLPPGQGMNNLDNLRDYLDGAVKVNLERKHQNKRSQIFPPGIVTMNE-YKIPQTVKV--RFCKVLDFR  284 (417)
T ss_dssp             EEEE--SSTTTTT----SHHHHHHTTHHHHH-SS-EEEECSSSEEEEE----EEEEESS--B--HHHHT--TEEEEEE--
T ss_pred             EEecCCCcCCCCCCCCCCCcccchhhhhhccCceeechhhhhcccccccCCCceEeecc-ccCCcceee--eeEeeEecc
Confidence            1111111        222334566677788874221     11111     24778887 478888887  999998886


Q ss_pred             C
Q 035603          335 Y  335 (431)
Q Consensus       335 ~  335 (431)
                      .
T Consensus       285 ~  285 (417)
T PF06431_consen  285 P  285 (417)
T ss_dssp             -
T ss_pred             c
Confidence            4

Their large T antigen (T-ag) protein binds to and activates DNA replication from the origin of DNA replication (ori). Insofar as is known, the T-ag binds to the origin first as a monomer to its pentanucleotide recognition element. The monomers are then thought to assemble into hexamers and double hexamers, which constitute the form that is active in initiation of DNA replication. When bound to the ori, T-ag double hexamers encircle DNA []. T-ag is a multidomain protein that contains an N-terminal J domain, which mediates protein interactions (see PDOC00553 from PROSITEDOC, IPR001623 from INTERPRO), a central origin-binding domain (OBD), and a C-terminal superfamily 3 helicase domain (see PDOC51206 from PROSITEDOC, IPR010932 from INTERPRO) []. This entry represents the helicase domain of LTag, which assembles into a hexameric structure containing a positively charged central channel that can bind both single- and double-stranded DNA []. ATP binding and hydrolysis trigger large conformational changes which are thought to be coupled to the melting of origin DNA and the unwinding of duplex DNA []. These conformational changes cause the angles and orientations between regions of a monomer to alter, creating what was described as an "iris"-like motion in the hexamer. In addition to this, six beta hairpins on the channel surface move longitudinally along the central channel, possibly serving as a motor for pulling DNA into the LTag double hexamer for unwinding.; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 2H1L_H 1SVO_A 1SVM_E 1SVL_B 1N25_A 4E2I_K.

>COG3378 Phage associated DNA primase [General function prediction only]

Probab=96.01  E-value=0.029  Score=59.27  Aligned_cols=55  Identities=24%  Similarity=0.399  Sum_probs=38.5

Q ss_pred             cccccc-ChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          192 FDTLAM-ASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       192 f~~l~g-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++++.+ +.++..-+.+.+-.-+..       .+.+...++|+||-|+||++++..|.+-+|.
T Consensus       201 L~~~~~~d~el~~ll~~i~g~~l~g-------~~~~~k~~~l~G~G~nGKstf~~li~~llG~  256 (517)
T COG3378         201 LDRVAGGDPELRNLLQRIIGASLTG-------RVSEQKLFWLYGPGGNGKSTFVDLISNLLGR  256 (517)
T ss_pred             HHHhhcCCHHHHHHHHHHHhheecC-------cccceeEEEEEcCCCCChHHHHHHHHHHhcc
Confidence            556665 555555544433322222       1457789999999999999999999999885

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.94  E-value=0.0074  Score=53.84  Aligned_cols=26  Identities=31%  Similarity=0.565  Sum_probs=22.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.+.||||+|||+++.-+|..|.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~   30 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLR   30 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHH
Confidence            34689999999999999999998764

>TIGR00376 DNA helicase, putative

Probab=95.94  E-value=0.0069  Score=66.09  Aligned_cols=34  Identities=29%  Similarity=0.528  Sum_probs=25.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      .-+|++||||||||+++.++...+   |..+..+..+
T Consensus       174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~s  210 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPS  210 (637)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCc
Confidence            357899999999999888877653   6666665544

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=95.93  E-value=0.0088  Score=59.75  Aligned_cols=25  Identities=36%  Similarity=0.695  Sum_probs=22.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ++.+++.||+|+|||+++++++.+.
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhh
Confidence            5789999999999999999999874

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=95.93  E-value=0.0069  Score=60.84  Aligned_cols=121  Identities=23%  Similarity=0.224  Sum_probs=63.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc----Cc-----CCh---H-HHH-HHHHHhhhc-------ccchhhH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT----SV-----ENN---N-ELR-SLLVDISSK-------KKKSNVT  286 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~----~~-----~~~---~-~l~-~l~~~~~~~-------~~~~~~~  286 (431)
                      -.+||.|.||||||.|.+.+++.....++..-.+    .+     .+.   + -+. ..+..+.+.       +......
T Consensus        58 ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk~~~~~  137 (331)
T PF00493_consen   58 IHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSSAAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDKMKEDD  137 (331)
T ss_dssp             --EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT--CHH
T ss_pred             cceeeccchhhhHHHHHHHHHhhCCceEEECCCCcccCCccceeccccccceeEEeCCchhcccCceeeecccccccchH
Confidence            3689999999999999998877666555543111    11     000   0 000 011112111       2333445


Q ss_pred             HHHHHHHhcCc---------ccCCCCceEEEEecCCCC-------------CCChhhhccCceeEEEEc-CCCCHHHHHH
Q 035603          287 LSGLLNCIGGL---------WSTCGGERIIVFTTNHVD-------------KLDPALIRRGRMDKHIEM-PYCCFEAFKV  343 (431)
Q Consensus       287 ~s~lL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~AllRpGRfd~~I~~-~~p~~~~r~~  343 (431)
                      ...|+.+|+.-         ...-..+.-|++++|...             .++++|+.  |||..+.+ ..|+.+.=..
T Consensus       138 ~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLS--RFDLif~l~D~~d~~~D~~  215 (331)
T PF00493_consen  138 RDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLS--RFDLIFLLRDKPDEEEDER  215 (331)
T ss_dssp             HHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHC--C-SEEECC--TTT-HHHHH
T ss_pred             HHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHh--hcCEEEEeccccccccccc
Confidence            77778877641         111112356899999765             58899999  99998775 5667665555


Q ss_pred             HHHHhhc
Q 035603          344 LAKNYLE  350 (431)
Q Consensus       344 i~~~~l~  350 (431)
                      +.++.+.
T Consensus       216 la~~il~  222 (331)
T PF00493_consen  216 LAEHILD  222 (331)
T ss_dssp             HHHHHHT
T ss_pred             cceEEEe
Confidence            6665554

; 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.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=95.91  E-value=0.0068  Score=55.56  Aligned_cols=27  Identities=37%  Similarity=0.586  Sum_probs=23.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      |.+.|++||||||+++.|++.+++.++
T Consensus         2 I~ieG~~GsGKSTl~~~L~~~~~~~~~   28 (193)
T cd01673           2 IVVEGNIGAGKSTLAKELAEHLGYEVV   28 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCccc
Confidence            568999999999999999999887544

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>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=95.89  E-value=0.007  Score=50.47  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +++.|++|+|||+|++.+++...
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            68899999999999999997543

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.

>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=95.88  E-value=0.0061  Score=58.36  Aligned_cols=29  Identities=38%  Similarity=0.753  Sum_probs=21.1

Q ss_pred             EeCCCCCcHHHHHHHHHHHcC---CCeEEecc
Q 035603          232 LFGPPGTGKSTMIAAMANCLN---YDVYDLEL  260 (431)
Q Consensus       232 L~GPPGtGKTsla~aiA~~l~---~~i~~l~~  260 (431)
                      +.||||+||||+++++...+.   .+++.+|+
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            369999999999999998764   45555443

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF13479 AAA_24: AAA domain

Probab=95.88  E-value=0.0044  Score=58.20  Aligned_cols=19  Identities=47%  Similarity=1.088  Sum_probs=17.6

Q ss_pred             eeEEeCCCCCcHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAM  247 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~ai  247 (431)
                      -+|+|||||+|||+++..+
T Consensus         5 ~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC
Confidence            5899999999999999887

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=95.88  E-value=0.0083  Score=60.12  Aligned_cols=30  Identities=27%  Similarity=0.353  Sum_probs=27.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.+.|.|+||||||+|+++|++.++.+++.
T Consensus       163 ~~~~~~G~~~~gkstl~~~l~~~~~~~~v~  192 (325)
T TIGR01526       163 KTVAILGGESTGKSTLVNKLAAVFNTTSAW  192 (325)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCCEEe
Confidence            478999999999999999999999988743

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.87  E-value=0.011  Score=53.99  Aligned_cols=33  Identities=39%  Similarity=0.539  Sum_probs=26.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~  259 (431)
                      +.-+.+.|+||+|||+++++++..+.   ...+.++
T Consensus        18 ~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~   53 (184)
T TIGR00455        18 GVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLD   53 (184)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            45678999999999999999999873   3444444

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.87  E-value=0.008  Score=61.88  Aligned_cols=30  Identities=30%  Similarity=0.436  Sum_probs=26.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .+-+.+.|++|||||||+++||..+|...+
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~v  248 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTSA  248 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCee
Confidence            467899999999999999999999987643

>TIGR00959 ffh signal recognition particle protein

Probab=95.87  E-value=0.014  Score=60.53  Aligned_cols=64  Identities=19%  Similarity=0.231  Sum_probs=39.1

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccCc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTSV  263 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~~  263 (431)
                      .+.+.+.+.+...+.....--......|.-+++.||||+|||+++..+|..+    |..+..+++...
T Consensus        72 ~~~~~v~~eL~~~l~~~~~~~~~~~~~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~  139 (428)
T TIGR00959        72 QFIKIVHEELVAILGGENASLNLAKKPPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLY  139 (428)
T ss_pred             HHHHHHHHHHHHHhCCCCcccccCCCCCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecccc
Confidence            3455555555555543211011111235678999999999999999888764    456666665543

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=95.86  E-value=0.0083  Score=65.15  Aligned_cols=150  Identities=19%  Similarity=0.174  Sum_probs=79.8

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCc---eeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc----CcC-
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKR---GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT----SVE-  264 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~r---g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~----~~~-  264 (431)
                      -+|.|.+++|+.|.  +..|-..+.... -|. +-|   .+||.|.||||||.|.+.+++-+-..+|.---+    ++. 
T Consensus       286 PsIyG~e~VKkAil--LqLfgGv~k~~~-~g~-~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTA  361 (682)
T COG1241         286 PSIYGHEDVKKAIL--LQLFGGVKKNLP-DGT-RIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTA  361 (682)
T ss_pred             ccccCcHHHHHHHH--HHhcCCCcccCC-CCc-ccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCcee
Confidence            35677777777763  222222111110 011 112   489999999999999999999888777653111    110 


Q ss_pred             --ChHHH-HHHHHHhhhc-------------ccchhhHHHHHHHHhcC---------cccCCCCceEEEEecCCCC----
Q 035603          265 --NNNEL-RSLLVDISSK-------------KKKSNVTLSGLLNCIGG---------LWSTCGGERIIVFTTNHVD----  315 (431)
Q Consensus       265 --~~~~l-~~l~~~~~~~-------------~~~~~~~~s~lL~~ldg---------~~~~~~~~~ivI~TTN~~~----  315 (431)
                        ..+.. .+...++...             +.......+.+..+|+.         +...-+...-|++++|.+.    
T Consensus       362 av~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~Gryd  441 (682)
T COG1241         362 AVVRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKFGRYD  441 (682)
T ss_pred             EEEEccCCCeEEEeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCCCcCC
Confidence              00000 1111111111             23344555666666643         1111122334788888664    


Q ss_pred             ---------CCChhhhccCceeEEEEc-CCCCHHHHHHHHHHh
Q 035603          316 ---------KLDPALIRRGRMDKHIEM-PYCCFEAFKVLAKNY  348 (431)
Q Consensus       316 ---------~Ld~AllRpGRfd~~I~~-~~p~~~~r~~i~~~~  348 (431)
                               +|+++|+.  |||...-+ .-|+.+.=+.++.+.
T Consensus       442 ~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~hi  482 (682)
T COG1241         442 PKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEHI  482 (682)
T ss_pred             CCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHHH
Confidence                     47899999  99988654 346654333344333

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=95.85  E-value=0.012  Score=62.17  Aligned_cols=55  Identities=25%  Similarity=0.440  Sum_probs=39.4

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCce-eEEeCCCCCcHHHHHHHHHHHcCC---CeEEe
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRG-YLLFGPPGTGKSTMIAAMANCLNY---DVYDL  258 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPPGtGKTsla~aiA~~l~~---~i~~l  258 (431)
                      +.+++++++.++..+.+...+    .           .+.| +|+.||+|+||||+..++-++++.   .++.+
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~----~-----------~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTi  276 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLI----R-----------RPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTV  276 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHH----h-----------cCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEE
Confidence            467899988887766654422    1           2356 589999999999999988877653   35544

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK14731 coaE dephospho-CoA kinase; Provisional

Probab=95.82  E-value=0.01  Score=55.45  Aligned_cols=32  Identities=22%  Similarity=0.325  Sum_probs=27.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-+-|+|++|||||++++.++. +|+++++.|
T Consensus         5 ~~~igitG~igsGKSt~~~~l~~-~g~~v~d~D   36 (208)
T PRK14731          5 PFLVGVTGGIGSGKSTVCRFLAE-MGCELFEAD   36 (208)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-CCCeEEecc
Confidence            34466899999999999999996 898888766

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.81  E-value=0.01  Score=57.47  Aligned_cols=40  Identities=25%  Similarity=0.234  Sum_probs=31.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      |++...-++|.||||+|||+++..+|..+    |.+++.+++..
T Consensus        26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~   69 (271)
T cd01122          26 GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE   69 (271)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence            56666778999999999999999887653    66777776554

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.75  E-value=0.017  Score=58.53  Aligned_cols=24  Identities=25%  Similarity=0.544  Sum_probs=21.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .|+.||||||||+|++.+|+.+..
T Consensus       136 ~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        136 GLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            599999999999999999997743

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=95.74  E-value=0.0085  Score=53.08  Aligned_cols=24  Identities=33%  Similarity=0.563  Sum_probs=21.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .+|+||.||+|+|||+++.++...
T Consensus        14 g~gvLi~G~sG~GKStlal~L~~~   37 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            579999999999999999988775

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>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=95.73  E-value=0.0082  Score=50.14  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=20.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMA  248 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA  248 (431)
                      ....+.|.||+|+|||+|++++.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34678999999999999999987

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

>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=95.70  E-value=0.0046  Score=53.21  Aligned_cols=29  Identities=34%  Similarity=0.433  Sum_probs=24.5

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +...-+.+.||+|+|||+|+++|++....
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            34567899999999999999999997653

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 ....

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=95.70  E-value=0.024  Score=50.62  Aligned_cols=34  Identities=29%  Similarity=0.336  Sum_probs=27.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ..+.+||.+|+|+|||.++-.++.++..+++.+-
T Consensus        24 ~~~~~ll~~~tGsGKT~~~~~~~~~l~~~~l~~~   57 (184)
T PF04851_consen   24 EERRVLLNAPTGSGKTIIALALILELARKVLIVA   57 (184)
T ss_dssp             GCSEEEEEESTTSSHHHHHHHHHHHHHCEEEEEE
T ss_pred             CCCCEEEEECCCCCcChhhhhhhhccccceeEec
Confidence            3578999999999999999987777766666553

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional

Probab=95.68  E-value=0.0094  Score=63.07  Aligned_cols=30  Identities=37%  Similarity=0.401  Sum_probs=25.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .-+.+.||+||||||+++.||..+|+.+++
T Consensus       285 ~ii~i~G~sgsGKst~a~~la~~l~~~~~d  314 (512)
T PRK13477        285 PIIAIDGPAGAGKSTVTRAVAKKLGLLYLD  314 (512)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            346788999999999999999999976654

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.67  E-value=0.015  Score=56.88  Aligned_cols=48  Identities=35%  Similarity=0.578  Sum_probs=36.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCcee-EEeCCCCCcHHHHHHHHHHHcCC
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGY-LLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~-LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .++.+|+.++.++-+.+ +.                  ..++|+ |..||.|+|||+...||-.++|.
T Consensus       103 ~~i~~~e~LglP~i~~~-~~------------------~~~~GLILVTGpTGSGKSTTlAamId~iN~  151 (353)
T COG2805         103 SKIPTLEELGLPPIVRE-LA------------------ESPRGLILVTGPTGSGKSTTLAAMIDYINK  151 (353)
T ss_pred             ccCCCHHHcCCCHHHHH-HH------------------hCCCceEEEeCCCCCcHHHHHHHHHHHHhc
Confidence            34578999988876555 32                  135675 56799999999999999998875

>PRK07667 uridine kinase; Provisional

Probab=95.67  E-value=0.012  Score=54.24  Aligned_cols=35  Identities=14%  Similarity=0.150  Sum_probs=26.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTS  262 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~  262 (431)
                      .-+.+.|+||+|||++++.|+..++   .++..++..+
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd   55 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD   55 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence            4567899999999999999999764   4555554444

>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae

Probab=95.66  E-value=0.013  Score=53.41  Aligned_cols=34  Identities=26%  Similarity=0.377  Sum_probs=27.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      +-|+|.|||-+||||+|++|...+.-+++.+...
T Consensus         2 ~iI~LNG~sSSGKSsia~~Lq~~~~~p~~~l~~D   35 (174)
T PF07931_consen    2 QIIILNGPSSSGKSSIARALQERLPEPWLHLSVD   35 (174)
T ss_dssp             -EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHhCcCCeEEEecC
Confidence            4589999999999999999999999988877543

Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.

>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional

Probab=95.66  E-value=0.02  Score=58.88  Aligned_cols=31  Identities=39%  Similarity=0.408  Sum_probs=27.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      +-|+|.+|||||++++.++. +|+++++.|--
T Consensus         4 IgltG~igsGKStv~~~L~~-~G~~vidaD~i   34 (395)
T PRK03333          4 IGLTGGIGAGKSTVAARLAE-LGAVVVDADVL   34 (395)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCeEEehHHH
Confidence            77999999999999999997 89999887643

>PRK10536 hypothetical protein; Provisional

Probab=95.66  E-value=0.015  Score=56.09  Aligned_cols=22  Identities=32%  Similarity=0.259  Sum_probs=20.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.||+|||||+||.|+|.+
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999999984

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.65  E-value=0.0095  Score=49.95  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=21.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++++++||||+|||.++.+.+..+.
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~~   25 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILELL   25 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHHH
Confidence            3689999999999999888877664

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.64  E-value=0.0078  Score=55.16  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -+.|.|+||+||||+++.+|+.++.
T Consensus         5 ~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         5 FIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999998843

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]

Probab=95.62  E-value=0.012  Score=58.05  Aligned_cols=37  Identities=24%  Similarity=0.438  Sum_probs=33.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ++-+++.||.++|||-|+-++|..+|..++.+|...+
T Consensus         3 ~~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~DSmQv   39 (308)
T COG0324           3 PKLIVIAGPTASGKTALAIALAKRLGGEIISLDSMQV   39 (308)
T ss_pred             ccEEEEECCCCcCHHHHHHHHHHHcCCcEEecchhhh
Confidence            4678999999999999999999999999998876543

>PRK13973 thymidylate kinase; Provisional

Probab=95.61  E-value=0.021  Score=53.52  Aligned_cols=46  Identities=30%  Similarity=0.369  Sum_probs=33.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC-cCChHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS-VENNNELRSLLV  274 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~-~~~~~~l~~l~~  274 (431)
                      =|.|.|++|+||||.++.++..|   |++++...... -...+.+++++.
T Consensus         5 ~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~~g~~ir~~l~   54 (213)
T PRK13973          5 FITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAIRHVLL   54 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCchHHHHHHHHc
Confidence            36688999999999999999999   88777664333 223445566554

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=95.58  E-value=0.02  Score=57.61  Aligned_cols=28  Identities=25%  Similarity=0.300  Sum_probs=25.0

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .++.+|+.||+|+||||+++|+..+...
T Consensus       159 ~~~nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        159 SKKNIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHhhCCC
Confidence            3578999999999999999999998864

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.56  E-value=0.017  Score=45.63  Aligned_cols=30  Identities=30%  Similarity=0.466  Sum_probs=25.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      +++.|.+|+|||+++..+|..+   |.++..++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~   34 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID   34 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence            5788999999999999999887   66666665

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

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.54  E-value=0.026  Score=59.97  Aligned_cols=39  Identities=21%  Similarity=0.195  Sum_probs=30.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH-c---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC-L---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~-l---~~~i~~l~~~  261 (431)
                      |+|...-+|++|+||||||+|+..++.+ +   |.+++.+++.
T Consensus        27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~e   69 (509)
T PRK09302         27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFE   69 (509)
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEcc
Confidence            6888888999999999999999977642 2   5566555443

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.48  E-value=0.01  Score=53.40  Aligned_cols=26  Identities=31%  Similarity=0.507  Sum_probs=22.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-.+++.||+|||||+|.+++|+...
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Lis   54 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLIS   54 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhccC
Confidence            34589999999999999999998654

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=95.46  E-value=0.0092  Score=63.82  Aligned_cols=28  Identities=25%  Similarity=0.392  Sum_probs=24.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .++++..+|+.||+|||||||.||||+-
T Consensus       415 ~v~~G~~llI~G~SG~GKTsLlRaiaGL  442 (604)
T COG4178         415 EVRPGERLLITGESGAGKTSLLRALAGL  442 (604)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4556677999999999999999999984

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	431
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		3e-09
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		8e-09
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-08
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		1e-07
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		6e-07
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		9e-07
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		9e-07
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		3e-06
2ce7_A	476	Edta Treated Length = 476		3e-06
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		5e-06
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		6e-06
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		6e-06
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		9e-06
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		1e-05
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		1e-05
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		1e-05
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		1e-05
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		5e-05
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		3e-04
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		3e-04
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		5e-04
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		6e-04
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		6e-04
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		8e-04

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 70/153 (45%), Gaps = 42/153 (27%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC-----------------------LNY 253
           + Y +IG    RG LL+GPPGTGK+ ++ A+AN                        +  
Sbjct: 196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVR 255
Query: 254 DVYDLELTSVENNNELRSLLVD----ISSKK--------KKSNVTLSGLLNCIGGLWSTC 301
           DV+ L   + EN   +  + +D    I++K+        ++    L  LL  + G   + 
Sbjct: 256 DVFRL---ARENAPSI--IFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQST 310
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
             +  ++  TN  D LDPAL+R GR+D+ IE P
Sbjct: 311 NVK--VIMATNRADTLDPALLRPGRLDRKIEFP 341

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 58.2 bits (139), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 32/148 (21%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA---NCLNYDVYDLELTSV---ENNNELR 270
           E +  +G A  +G +L+GPPGTGK+ +  A+A   +C    V   EL      E +  +R
Sbjct: 172 ELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVR 231
Query: 271 SLLV----------------DISSKK--------KKSNVTLSGLLNCIGGLWSTCGGERI 306
            L V                 I S +         +   T+  LLN + G  ++   +  
Sbjct: 232 ELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIK-- 289
Query: 307 IVFTTNHVDKLDPALIRRGRMDKHIEMP 334
           I+  TN +D LDPAL+R GR+D+ IE P
Sbjct: 290 IIMATNRLDILDPALLRPGRIDRKIEFP 317

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 71/161 (44%), Gaps = 36/161 (22%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV------ENNNELR 270
           E + ++G    +G LL+GPPGTGK+ +  A+A  +  +      + +      E+   +R
Sbjct: 205 EIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIR 264
Query: 271 SLL---------------VDI---------SSKKKKSNVTLSGLLNCIGGLWSTCGGERI 306
            +                VD          +S  ++   TL  LL  + G  +   G+  
Sbjct: 265 EMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL--GQTK 322
Query: 307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCC----FEAFKV 343
           I+  TN  D LDPAL+R GR+D+ +E+P        E FK+
Sbjct: 323 IIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKI 363

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/147 (30%), Positives = 67/147 (45%), Gaps = 30/147 (20%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNNELRSLL 273
           E + K+G    +G LL+GPPGTGK+ +  A+A   N     V   EL   +   E  SL+
Sbjct: 41  ELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK-KFIGEGASLV 99
Query: 274 VDI--SSKKKKSNVTLSGLLNCIGGLWSTC--GGER----------------------II 307
            DI   +K+K  ++     ++ I    +    GG+R                       I
Sbjct: 100 KDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKI 159
Query: 308 VFTTNHVDKLDPALIRRGRMDKHIEMP 334
           +  TN  D LDPA++R GR D+ IE+P
Sbjct: 160 IGATNRPDILDPAILRPGRFDRIIEVP 186

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 65/145 (44%), Gaps = 32/145 (22%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL------------------ 258
           E Y ++G    +G +L+G PGTGK+ +  A+AN  +     +                  
Sbjct: 206 ELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCR 265
Query: 259 ELTSVENNNELRSLLVD----ISSKKKKSNV--------TLSGLLNCIGGLWSTCGGERI 306
           ++  V   N    + +D    I +K+  SN         T+  LLN + G      G+  
Sbjct: 266 QIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR--GDVK 323
Query: 307 IVFTTNHVDKLDPALIRRGRMDKHI 331
           ++  TN ++ LDPALIR GR+D+ I
Sbjct: 324 VIMATNKIETLDPALIRPGRIDRKI 348

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/153 (28%), Positives = 68/153 (44%), Gaps = 39/153 (25%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--------NNNE 268
           E + ++G    +G LL GPPG GK+ +  A+A      V  L +   E            
Sbjct: 29  ERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT--EAQVPFLAMAGAEFVEVIGGLGAAR 86
Query: 269 LRSL-------------LVDISSKKKKSNVTLSGLLNC------------IGGLWSTCGG 303
           +RSL             + +I +  KK + T+SG  N             + G+ +T   
Sbjct: 87  VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT--D 144
Query: 304 ERIIVFTTNHVDKLDPALIRRGRMDKH--IEMP 334
             I++ +TN  D LD AL+R GR+D+H  I++P
Sbjct: 145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLP 177

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 66/150 (44%), Gaps = 34/150 (22%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV------ENNNELR 270
           + +  +G    +G L++GPPGTGK+ +  A A   N     L    +      E    +R
Sbjct: 205 DKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVR 264
Query: 271 S------------LLVD----ISSKK--------KKSNVTLSGLLNCIGGLWSTCGGERI 306
                        + +D    I +K+        ++   T+  LLN + G  S    +R+
Sbjct: 265 DAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSS---DDRV 321
Query: 307 IVFT-TNHVDKLDPALIRRGRMDKHIEMPY 335
            V   TN VD LDPAL+R GR+D+ IE P 
Sbjct: 322 KVLAATNRVDVLDPALLRSGRLDRKIEFPL 351

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 41/146 (28%), Positives = 63/146 (43%), Gaps = 32/146 (21%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSV---ENNNELR 270
           E +A +G    +G LL+GPPGTGK+    A+AN  +     V   EL      E    +R
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVR 292
Query: 271 SLLVDISSKKKKSNVTLSGLLNCIGGLWSTCG------------------------GERI 306
            L     ++ KK+ +     ++ +GG     G                        G   
Sbjct: 293 ELFE--MARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIK 350
Query: 307 IVFTTNHVDKLDPALIRRGRMDKHIE 332
           ++F TN  + LDPAL+R GR+D+ +E
Sbjct: 351 VMFATNRPNTLDPALLRPGRIDRKVE 376

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 63/150 (42%), Gaps = 32/150 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL------ELTSVEN 265
           F +    + +IG    +G LL GPPGTGK+ +  A+A   N   + +      EL     
Sbjct: 34  FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVG 93
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   + + + +         TL+ LL  + G  S  
Sbjct: 94  AARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKE 153
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHI 331
           G   I++  TN  D LDPAL+R GR DK I
Sbjct: 154 G--IIVMAATNRPDILDPALLRPGRFDKKI 181

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 63/145 (43%), Gaps = 30/145 (20%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS-VE-----NNNELR 270
           E YA +G    +G LL GPPGTGK+ +  A+A   +   + +  +S +E       + +R
Sbjct: 34  ERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVR 93
Query: 271 SLL---------------VDISSKKKKSNVTLSG------LLNCIGGLWSTCGGER---I 306
            L                +D   K + +   +SG       LN +       G E    I
Sbjct: 94  DLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVI 153
Query: 307 IVFTTNHVDKLDPALIRRGRMDKHI 331
           ++  TN  + LDPAL+R GR D+ +
Sbjct: 154 VLAATNRPEILDPALMRPGRFDRQV 178

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 29/142 (20%)
Query: 219 YAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS- 271
           +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR  
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 272 -----------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFTT 311
                      + +D    I+ K++K++       +S LL  + GL        I++  T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAAT 347
Query: 312 NHVDKLDPALIRRGRMDKHIEM 333
           N  + +DPAL R GR D+ +++
Sbjct: 348 NRPNSIDPALRRFGRFDREVDI 369

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 29/142 (20%)
Query: 219 YAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS- 271
           +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR  
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 272 -----------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFTT 311
                      + +D    I+ K++K++       +S LL  + GL        I++  T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAAT 347
Query: 312 NHVDKLDPALIRRGRMDKHIEM 333
           N  + +DPAL R GR D+ +++
Sbjct: 348 NRPNSIDPALRRFGRFDREVDI 369

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score = 48.1 bits (113), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 29/142 (20%)
Query: 219 YAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS- 271
           +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR  
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 272 -----------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFTT 311
                      + +D    I+ K++K++       +S LL  + GL        I++  T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAAT 347
Query: 312 NHVDKLDPALIRRGRMDKHIEM 333
           N  + +DPAL R GR D+ +++
Sbjct: 348 NRPNSIDPALRRFGRFDREVDI 369

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/143 (28%), Positives = 68/143 (47%), Gaps = 29/143 (20%)
Query: 218 YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS 271
            +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR 
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 272 ------------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFT 310
                       + +D    I+ K++K++       +S LL  + GL        I++  
Sbjct: 289 AFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAA 346
Query: 311 TNHVDKLDPALIRRGRMDKHIEM 333
           TN  + +DPAL R GR D+ +++
Sbjct: 347 TNRPNSIDPALRRFGRFDREVDI 369

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 29/142 (20%)
Query: 219 YAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS- 271
           +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR  
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 272 -----------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFTT 311
                      + +D    I+ K++K++       +S LL  + GL        I++  T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAAT 347
Query: 312 NHVDKLDPALIRRGRMDKHIEM 333
           N  + +DPAL R GR D+ +++
Sbjct: 348 NRPNSIDPALRRFGRFDREVDI 369

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/143 (28%), Positives = 68/143 (47%), Gaps = 29/143 (20%)
Query: 218 YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV---ENNNELRS 271
            +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR 
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 272 ------------LLVD----ISSKKKKSN-----VTLSGLLNCIGGLWSTCGGERIIVFT 310
                       + +D    I+ K++K++       +S LL  + GL        I++  
Sbjct: 289 AFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAA 346
Query: 311 TNHVDKLDPALIRRGRMDKHIEM 333
           TN  + +DPAL R GR D+ +++
Sbjct: 347 TNRPNSIDPALRRFGRFDREVDI 369

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 42/150 (28%), Positives = 62/150 (41%), Gaps = 32/150 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL------ELTSVEN 265
           F +    + +IG    +G LL GPPGTG + +  A+A   N   + +      EL     
Sbjct: 34  FLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVELFVGVG 93
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   + + + +         TL+ LL  + G  S  
Sbjct: 94  AARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKE 153
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHI 331
           G   I++  TN  D LDPAL+R GR DK I
Sbjct: 154 G--IIVMAATNRPDILDPALLRPGRFDKKI 181

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 34/143 (23%), Positives = 61/143 (42%), Gaps = 32/143 (22%)
Query: 219 YAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL------ELTSVENNNELRSL 272
           + K+G    +G L+ GPPGTGK+ +  A+A       + +      E+      + +R +
Sbjct: 37  FQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDM 96
Query: 273 L---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTCGGERIIV 308
                           +D   +++ + +         TL+ +L  + G     G   I++
Sbjct: 97  FEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG--IIVI 154
Query: 309 FTTNHVDKLDPALIRRGRMDKHI 331
             TN  D LDPAL+R GR D+ +
Sbjct: 155 AATNRPDVLDPALLRPGRFDRQV 177

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 60/152 (39%), Gaps = 32/152 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD------LELTSVEN 265
           F +    + ++G    +G LL GPPG GK+ +  A+A               +E+     
Sbjct: 49  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 108
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   +K+ S V         TL+ LL  + G     
Sbjct: 109 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT 168
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
               +++  TN  D LDPAL+R GR D+ I +
Sbjct: 169 A--IVVMAATNRPDILDPALLRPGRFDRQIAI 198

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 60/152 (39%), Gaps = 32/152 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD------LELTSVEN 265
           F +    + ++G    +G LL GPPG GK+ +  A+A               +E+     
Sbjct: 58  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   +K+ S V         TL+ LL  + G     
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT 177
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
               +++  TN  D LDPAL+R GR D+ I +
Sbjct: 178 A--IVVMAATNRPDILDPALLRPGRFDRQIAI 207

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 35/152 (23%), Positives = 67/152 (44%), Gaps = 32/152 (21%)
Query: 213 TEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---ELTSV---ENN 266
            E  + + K G    +G L +GPPG GK+ +  A+AN    +   +   EL ++   E+ 
Sbjct: 35  VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESE 94
Query: 267 NELRSLL---------------VDISSKKKK---------SNVTLSGLLNCIGGLWSTCG 302
             +R +                +D  +K +          ++  ++ +L  + G+  +  
Sbjct: 95  ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM--STK 152
Query: 303 GERIIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
               I+  TN  D +DPA++R GR+D+ I +P
Sbjct: 153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 184

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 60/152 (39%), Gaps = 32/152 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD------LELTSVEN 265
           F +    + ++G    +G LL GPPG GK+ +  A+A               +E+     
Sbjct: 58  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   +K+ S V         TL+ LL  + G     
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT 177
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
               +++  TN  D LDPAL+R GR D+ I +
Sbjct: 178 A--IVVMAATNRPDILDPALLRPGRFDRQIAI 207

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 42.0 bits (97), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 60/152 (39%), Gaps = 32/152 (21%)
Query: 212 FTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD------LELTSVEN 265
           F +    + ++G    +G LL GPPG GK+ +  A+A               +E+     
Sbjct: 34  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 266 NNELRSLL---------------VDISSKKKKSNV---------TLSGLLNCIGGLWSTC 301
              +R L                +D   +K+ S V         TL+ LL  + G     
Sbjct: 94  AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT 153
Query: 302 GGERIIVFTTNHVDKLDPALIRRGRMDKHIEM 333
               +++  TN  D LDPAL+R GR D+ I +
Sbjct: 154 A--IVVMAATNRPDILDPALLRPGRFDRQIAI 183

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 39/142 (27%), Positives = 64/142 (45%), Gaps = 29/142 (20%)
Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN--CLNY-DVYDLELTSV---ENNNELR 270
           + +  +G     G LL GPPG GK+ +  A+AN   LN+  V   EL ++   E+   +R
Sbjct: 34  DQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVR 93
Query: 271 SLL---------------VDISSKKKKSNVT------LSGLLNCIGGLWSTCGGERIIVF 309
            +                VD    ++    T      ++ LL  + GL +    +  I+ 
Sbjct: 94  QVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEAR--QQVFIMA 151
Query: 310 TTNHVDKLDPALIRRGRMDKHI 331
            TN  D +DPA++R GR+DK +
Sbjct: 152 ATNRPDIIDPAILRPGRLDKTL 173

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	431
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-16
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	7e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-14
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	1e-12
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	9e-12
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	4e-11
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-08
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	8e-08
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-07
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-07
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	1e-06
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-05
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	8e-04
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	4e-05
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	4e-05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	4e-05
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	5e-05
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	6e-05
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	7e-05
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	7e-05
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	8e-05
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	1e-04
2qgz_A	308	Helicase loader, putative primosome component; str	2e-04
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-04
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-04
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	3e-04
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	8e-04
2chg_A	226	Replication factor C small subunit; DNA-binding pr	8e-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 = 75.3 bits (184), Expect = 1e-14
 Identities = 65/408 (15%), Positives = 122/408 (29%), Gaps = 153/408 (37%)

Query: 88  FKAD-DYEEVSDEYKGV--------------------RVWWVLGKKVPRTPVVYFYPGSY 126
           F  + D ++V D  K +                    R++W L  K  +  +V  +    
Sbjct: 29  FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK--QEEMVQKFVEEV 86

Query: 127 DERHYTL---TFHKRYRE--LITGEYVNQVLEEGKAIAVRNRQRKLYKNVPCQAWYEKKW 181
              +Y           R+  ++T  Y+ Q          R+R   LY +    A Y    
Sbjct: 87  LRINYKFLMSPIKTEQRQPSMMTRMYIEQ----------RDR---LYNDNQVFAKY---- 129

Query: 182 SHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKS 241
            +V               +    +++ L++    K              L+ G  G+GK+
Sbjct: 130 -NVSRL------------QPYLKLRQALLELRPAK------------NVLIDGVLGSGKT 164

Query: 242 TMIAA-------------------MANC------------LNYDV-----------YDLE 259
            +                      + NC            L Y +            +++
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 260 LTSVENNNELR----------SLLV--DISSKKKKSNVTLSGL-LNCIGGLWSTCGGERI 306
           L       ELR           LLV  ++ + K       +   L+C           +I
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK-----AWNAFNLSC-----------KI 268

Query: 307 IVFTTNH--VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIG--- 361
           ++ T      D L  A      +D H  M     E   +L K YL+    +L  E+    
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLD-HHSMTLTPDEVKSLLLK-YLDCRPQDLPREVLTTN 326

Query: 362 ----SLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKA 405
               S++ E+        +N     + D   T +++ +  L+ A+ + 
Sbjct: 327 PRRLSIIAESIRDGLATWDNW-KHVNCDKLTTIIESSLNVLEPAEYRK 373

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 68.3 bits (167), Expect = 1e-12
 Identities = 41/145 (28%), Positives = 67/145 (46%), Gaps = 29/145 (20%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---ELTSV---ENNNELR 270
             +  IG    RG LL+GPPGTGK+ +  A+AN      + +   E+ S    E+ + LR
Sbjct: 228 ALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLR 287

Query: 271 SL------------LVD----ISSKKKKSNV-----TLSGLLNCIGGLWSTCGGERIIVF 309
                          +D    I+ K++K++       +S LL  + GL        I++ 
Sbjct: 288 KAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ--RAHVIVMA 345

Query: 310 TTNHVDKLDPALIRRGRMDKHIEMP 334
            TN  + +DPAL R GR D+ +++ 
Sbjct: 346 ATNRPNSIDPALRRFGRFDREVDIG 370

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 64.6 bits (158), Expect = 9e-12
 Identities = 46/150 (30%), Positives = 70/150 (46%), Gaps = 34/150 (22%)

Query: 216 KEYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMANCLN---YDVYDLELTSV---ENNNE 268
            E + K+G    +G LL+GPPGTGK T++A A+A   N     V   EL      E  + 
Sbjct: 40  PELFEKVGIEPPKGILLYGPPGTGK-TLLAKAVATETNATFIRVVGSELVKKFIGEGASL 98

Query: 269 LRSLL---------------VD-ISSKKKKSNV--------TLSGLLNCIGGLWSTCGGE 304
           ++ +                +D I++K+  +          TL  LL  + G  +   G+
Sbjct: 99  VKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDAR--GD 156

Query: 305 RIIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
             I+  TN  D LDPA++R GR D+ IE+P
Sbjct: 157 VKIIGATNRPDILDPAILRPGRFDRIIEVP 186

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 62.5 bits (152), Expect = 4e-11
 Identities = 27/176 (15%), Positives = 46/176 (26%), Gaps = 44/176 (25%)

Query: 203 EAIKKDLIKFTE--GKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY------- 253
                 + K      K +             ++G  G GKS     +   +         
Sbjct: 10  YIAPAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSA 69

Query: 254 ----------------DVYDLELTSVENN-------NEL------RSLLVDISSKKKKSN 284
                             Y      +          N+L             +   +  N
Sbjct: 70  GELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVN 129

Query: 285 VTLSGLLNC-----IGGLWSTCGGERI-IVFTTNHVDKLDPALIRRGRMDKHIEMP 334
            TL  + +      + G+++     R+ I+ T N    L   LIR GRM+K    P
Sbjct: 130 ATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAP 185

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 55.0 bits (133), Expect = 1e-08
 Identities = 48/182 (26%), Positives = 73/182 (40%), Gaps = 34/182 (18%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIA------AMANCLNYDVYDL------------ 258
           E +  +    K G LLFGPPG GK T++A        A  LN     L            
Sbjct: 45  ELFTGLRAPAK-GLLLFGPPGNGK-TLLARAVATECSATFLNISAASLTSKYVGDGEKLV 102

Query: 259 -ELTSVENNN--------ELRSLLVDISSKKKKSNVTL-SGLLNCIGGLWSTCGGERIIV 308
             L +V  +         E+ SLL + SS + +++  L +  L    GL     G+RI+V
Sbjct: 103 RALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVV 162

Query: 309 F-TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGE 366
              TN   +LD A +R  R  K + +     +  ++L    L+ +   L    +  L   
Sbjct: 163 LAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKI 220

Query: 367 TD 368
           TD
Sbjct: 221 TD 222

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 52.9 bits (127), Expect = 8e-08
 Identities = 42/169 (24%), Positives = 67/169 (39%), Gaps = 34/169 (20%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIA------AMANCLNYDVYDL------------ 258
           E +  +    + G LLFGPPG GK TM+A      + A   N     L            
Sbjct: 139 ELFTGLRAPAR-GLLLFGPPGNGK-TMLAKAVAAESNATFFNISAASLTSKYVGEGEKLV 196

Query: 259 -ELTSVENNN--------ELRSLLVDISSKKKKSNVTL-SGLLNCIGGLWSTCGGERIIV 308
             L +V            ++ SLL +    +  ++  L +  L    G+  + G +R++V
Sbjct: 197 RALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGV-QSAGDDRVLV 255

Query: 309 F-TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
              TN   +LD A++R  R  K + +     E   +L KN L  +   L
Sbjct: 256 MGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPL 302

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score = 52.1 bits (125), Expect = 1e-07
 Identities = 42/169 (24%), Positives = 66/169 (39%), Gaps = 34/169 (20%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIA------AMANCLNYDVYDL------------ 258
           + +  +    K G LLFGPPGTGK T+I       + A   +     L            
Sbjct: 108 DIFTGLRGPPK-GILLFGPPGTGK-TLIGKCIASQSGATFFSISASSLTSKWVGEGEKMV 165

Query: 259 -ELTSVENNN--------ELRSLLVDISSKKKKSNVTL-SGLLNCIGGLWSTCGGERIIV 308
             L +V            E+ SLL      + +S+  + +  L  + G  +T   +RI+V
Sbjct: 166 RALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGA-TTSSEDRILV 224

Query: 309 F-TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
              TN   ++D A  R  R+ K + +P     A K +  N +  E   L
Sbjct: 225 VGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCL 271

>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* Length = 272

 Score = 51.3 bits (123), Expect = 2e-07
 Identities = 29/226 (12%), Positives = 65/226 (28%), Gaps = 53/226 (23%)

Query: 228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL---ELTS----VENNNELRSLLVDISSKK 280
              LL GPP +GK+ + A +A   N+    +   +             ++ +  D  + K
Sbjct: 65  VSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDD--AYK 122

Query: 281 KK----------------------SNVTLSGLLNCIGGLWSTCGGERIIVF-TTNHVDKL 317
            +                      SN+ L  LL  +        G ++++  TT+  D L
Sbjct: 123 SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP--QGRKLLIIGTTSRKDVL 180

Query: 318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAEN 377
              +         I +P               ++       E+     + +         
Sbjct: 181 Q-EMEMLNAFSTTIHVP---------NIATGEQLLE---ALELLGNFKDKER------TT 221

Query: 378 LMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAELKAEEANGS 423
           +  +         +K L+  ++ + +   +    +      E   S
Sbjct: 222 IAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGAS 267

>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 = 49.9 bits (119), Expect = 1e-06
 Identities = 29/126 (23%), Positives = 49/126 (38%), Gaps = 11/126 (8%)

Query: 189 PATFDTL----AMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMI 244
           P     +        K K  +           ++  K G    R  +L+GPPG GK+T  
Sbjct: 35  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 94

Query: 245 AAMANCLNYDVYDLELTSVENNNELRSL-LVDISSKKKKSNVTLSGLLNCIGGLWSTCGG 303
             +A  L YD+  LE     N +++RS  L++   K    N+++ G         +  G 
Sbjct: 95  HLVAQELGYDI--LEQ----NASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGK 148

Query: 304 ERIIVF 309
             +I+ 
Sbjct: 149 HFVIIM 154

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score = 45.3 bits (108), Expect = 2e-05
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 6/52 (11%)

Query: 203 EAIKKDLIKFTEG----KEYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMAN 249
           E +K++L +  +      + + K G    +G L +GPPG GK T++A A+AN
Sbjct: 21  EDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGK-TLLAKAIAN 71

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score = 40.3 bits (95), Expect = 8e-04
 Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 306 IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEA----FKVLAKN 347
            I+  TN  D +DPA++R GR+D+ I +P    ++     K   + 
Sbjct: 156 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK 201

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 6/52 (11%)

Query: 203 EAIKKDLIKFTEG----KEYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMAN 249
           E I+++L           + +  +G     G LL GPPG GK T++A A+AN
Sbjct: 16  EDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGK-TLLAKAVAN 66

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A Length = 180

 Score = 43.1 bits (101), Expect = 4e-05
 Identities = 29/157 (18%), Positives = 54/157 (34%), Gaps = 16/157 (10%)

Query: 231 LLFGPPGTGKSTMIAAMANCLNYDVYDL------ELTSVENNNELRSLLVDISSKKKKSN 284
           LL G PG GK+T+   +A+       ++      E      + E    ++D      + +
Sbjct: 15  LLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVDELD 74

Query: 285 VTLSGLLNCIGGLWSTCGGER---IIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAF 341
             +      +         ER   I+       + L   L  RG  +K +     C E F
Sbjct: 75  NQMREGGVIVDYHGCDFFPERWFHIVFVLRTDTNVLYERLETRGYNEKKLTDNIQC-EIF 133

Query: 342 KVLAKNYLEIESHELFHEIGSLLGETDITPADVAENL 378
           +VL +        E+ H++          P ++  N+
Sbjct: 134 QVLYEEATASYKEEIVHQL------PSNKPEELENNV 164

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 43.1 bits (102), Expect = 4e-05
 Identities = 19/91 (20%), Positives = 34/91 (37%), Gaps = 15/91 (16%)

Query: 161 RNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYA 220
           R RQ  L +++       +          A+   + +    +    +   +F    E   
Sbjct: 3   RKRQESLIQSMFMPREILR----------ASLSDVDLNDDGRIKAIRFAERFVAEYEPGK 52

Query: 221 KIGKAWKRGYLLFGPPGTGKSTMIAAMANCL 251
           K      +G  L G  G GK+ ++AA+AN L
Sbjct: 53  K-----MKGLYLHGSFGVGKTYLLAAIANEL 78

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 43.5 bits (103), Expect = 5e-05
 Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           TF  +A   + KE +  +L+++      + K+G    +G L+ GPPGTGK+ +  A+A
Sbjct: 10  TFADVAGCDEAKEEVA-ELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA 66

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           TF  +A A + KE +K ++++F +    + ++G    +G LL GPPG GK+ +  A+A
Sbjct: 14  TFKDVAGAEEAKEELK-EIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 70

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score = 43.5 bits (103), Expect = 7e-05
 Identities = 36/174 (20%), Positives = 63/174 (36%), Gaps = 45/174 (25%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTM----IAAMANCLNYDVYDLELTS-----VENN- 266
             +    K    G LL+GPPGTGK +     +A  AN   + V   +L S      E   
Sbjct: 42  HLFKGNRKPTS-GILLYGPPGTGK-SYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLV 99

Query: 267 -----------------NELRSLLVD------ISSKKKKSNVTLSGLLNCIGGLWSTCGG 303
                            +++ +L          +S++ K+      LL  + G+      
Sbjct: 100 KQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTE-----LLVQMNGV--GNDS 152

Query: 304 ERIIVF-TTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL 356
           + ++V   TN   +LD A+ R  R ++ I +P     A   + +  +      L
Sbjct: 153 QGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVL 204

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 43.5 bits (103), Expect = 7e-05
 Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           TF  +A A + KE +K ++++F +    + ++G    +G LL GPPG GK+ +  A+A
Sbjct: 38  TFKDVAGAEEAKEELK-EIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 94

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 43.5 bits (103), Expect = 8e-05
 Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 217 EYYAKIGKAWKRGYLLFGPPGTGKSTMIA-AMAN 249
             +      W+ G LLFGPPGTGK + +A A+A 
Sbjct: 36  HLFTGKRTPWR-GILLFGPPGTGK-SYLAKAVAT 67

>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* Length = 268

 Score = 42.2 bits (100), Expect = 1e-04
 Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
            F  +A   + KE +  +++ F +  E YA +G    +G LL GPPGTGK+ +  A+A
Sbjct: 9   RFKDMAGNEEAKEEVV-EIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVA 65

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 23/144 (15%), Positives = 51/144 (35%), Gaps = 29/144 (20%)

Query: 190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN 249
                + + +  +      ++ F E      +   A ++G  L+G  G GKS ++AAMA+
Sbjct: 121 IHLSDIDVNNASRMEAFSAILDFVE------QYPSAEQKGLYLYGDMGIGKSYLLAAMAH 174

Query: 250 CL----NYDVY-----DL--ELTSVENNNELRSLLVDISS----------KKKKSNVTLS 288
            L                  ++ +  +N  ++  +  + +           ++ ++    
Sbjct: 175 ELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAVKNVPVLILDDIGAEQATSWVRD 234

Query: 289 GLLNCIGGLWSTCGGERIIVFTTN 312
            +L  I  L      E    FT+N
Sbjct: 235 EVLQVI--LQYRMLEELPTFFTSN 256

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 42/188 (22%), Positives = 73/188 (38%), Gaps = 43/188 (22%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTM---IAAMANCLNYDVYDL 258
           KEA+K+ +I   +    +    K    G LL+GPPGTGKS +   +A  AN   + V   
Sbjct: 60  KEALKEAVILPVKFPHLFKGNRKPTS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSS 118

Query: 259 ELTS-----VENN------------------NELRSLLVD------ISSKKKKSNVTLSG 289
           +L S      E                    +++ +L          +S++ K+      
Sbjct: 119 DLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTE----- 173

Query: 290 LLNCIGGLWSTCGGERIIVFT-TNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY 348
           LL  + G+      + ++V   TN   +LD A+ R  R ++ I +P     A   + +  
Sbjct: 174 LLVQMNGV--GNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEIN 229

Query: 349 LEIESHEL 356
           +      L
Sbjct: 230 VGDTPSVL 237

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 49/203 (24%), Positives = 80/203 (39%), Gaps = 35/203 (17%)

Query: 184 VYFEHPA-TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKST 242
           +  E P   +  +A     KEA+K+ +I   +    +      W+ G LLFGPPGTGKS 
Sbjct: 124 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWR-GILLFGPPGTGKSY 182

Query: 243 M---IAAMANCLN-YDVYDLELTS---VENNNELRSL------------LVD-ISSKKKK 282
           +   +A  AN    + +   +L S    E+   +++L             +D I S    
Sbjct: 183 LAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGS 242

Query: 283 SNVTLSG--------LLNCIGGLWSTCGGERIIVF-TTNHVDKLDPALIRRGRMDKHIEM 333
            +   S          L  + G+      + I+V   TN    LD A+ R  R +K I +
Sbjct: 243 RSENESEAARRIKTEFLVQMQGV--GVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYI 298

Query: 334 PYCCFEAFKVLAKNYLEIESHEL 356
           P     A   + + +L    + L
Sbjct: 299 PLPEAHARAAMFRLHLGSTQNSL 321

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           +F  +A   + K  ++ + + + +  E + ++G    +G LL GPPG GK+ +  A+A
Sbjct: 4   SFKDVAGMHEAKLEVR-EFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 39.9 bits (94), Expect = 8e-04
 Identities = 13/29 (44%), Positives = 21/29 (72%)

Query: 306 IIVFTTNHVDKLDPALIRRGRMDKHIEMP 334
           I++ +TN  D LD AL+R GR+D+H+ + 
Sbjct: 147 IVLASTNRADILDGALMRPGRLDRHVFID 175

>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} Length = 226

 Score = 39.9 bits (94), Expect = 8e-04
 Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 3/33 (9%)

Query: 231 LLFGPPGTGKSTMIAAMANCLNYDVYD---LEL 260
           L  GPPGTGK+    A+A  L  + +    +E+
Sbjct: 42  LFSGPPGTGKTATAIALARDLFGENWRDNFIEM 74

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	431
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.96
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.95
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.94
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.94
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.94
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.94
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.94
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.93
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.92
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.91
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.91
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.91
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.91
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.9
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.89
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.89
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.89
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.88
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.88
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.86
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.84
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.79
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.71
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.71
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.66
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.63
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.63
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.59
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.57
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.57
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.55
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.54
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.54
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.48
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.48
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.48
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.47
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.47
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.47
3pvs_A	447	Replication-associated recombination protein A; ma	99.47
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.46
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.46
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.44
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.43
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.43
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.42
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.4
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.39
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.39
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.39
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.38
3bos_A	242	Putative DNA replication factor; P-loop containing	99.36
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.36
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.36
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.33
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.33
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.32
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.31
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.28
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.26
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.26
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.24
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.23
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.22
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.21
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.21
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.17
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.15
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.13
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.04
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.02
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.98
3co5_A	143	Putative two-component system transcriptional RES	98.97
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.95
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.87
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.83
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.73
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.63
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.55
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.51
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.48
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.47
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.36
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.28
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.25
2qgz_A	308	Helicase loader, putative primosome component; str	98.19
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.15
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.09
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	97.96
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	97.96
2fna_A	357	Conserved hypothetical protein; structural genomic	97.95
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	97.94
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.91
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.91
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.84
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.8
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.78
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.78
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.71
3f8t_A	506	Predicted ATPase involved in replication control,	97.66
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.65
1via_A	175	Shikimate kinase; structural genomics, transferase	97.64
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.63
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.62
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.62
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.62
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.59
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.53
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.52
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.51
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.5
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.49
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.49
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.46
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.46
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.45
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.45
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.43
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.42
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.41
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.41
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.41
3kw6_A	78	26S protease regulatory subunit 8; structural geno	97.41
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.4
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.38
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.37
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.37
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.36
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.35
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.34
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.33
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.32
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.31
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.25
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.24
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.24
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.23
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.22
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.21
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.17
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.17
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.16
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.15
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.13
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.12
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.1
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.09
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.08
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	97.08
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.08
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.08
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.07
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.06
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.05
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.04
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.02
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.01
2krk_A	86	26S protease regulatory subunit 8; structural geno	97.01
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.0
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.0
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.96
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.95
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.94
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.92
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.9
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.9
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.88
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.88
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.87
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.87
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	96.83
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.81
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.79
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.77
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.75
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.74
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.74
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.73
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.73
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.72
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.7
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.7
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.69
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.68
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.67
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.64
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.63
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.61
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.6
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.57
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.56
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.55
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.52
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.51
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.49
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.48
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.48
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.46
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.46
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.39
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.38
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.37
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.36
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.34
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.33
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.32
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.31
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.24
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.23
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.21
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.21
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.2
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.19
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.18
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.11
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.1
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.1
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.09
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.09
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.01
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	96.01
2og2_A	359	Putative signal recognition particle receptor; nuc	95.98
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.96
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.96
3io5_A	333	Recombination and repair protein; storage dimer, i	95.95
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.94
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.92
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	95.9
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.88
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	95.88
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.86
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.78
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.76
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.76
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.75
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.75
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.69
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.67
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.65
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.61
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.58
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.54
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.53
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	95.53
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.51
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.47
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.42
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.36
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.35
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.31
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.31
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.31
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.25
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.24
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.22
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.21
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.21
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.2
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.2
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.2
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.18
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.17
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.15
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.09
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.09
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.09
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.08
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.02
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.02
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.97
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.9
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.85
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.81
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.8
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.8
2xxa_A	433	Signal recognition particle protein; protein trans	94.78
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	94.74
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.73
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.71
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.68
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.61
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.58
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.58
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.58
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.57
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.54
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.53
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.51
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.51
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.49
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.48
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.45
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.44
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.41
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.39
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.37
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.35
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.32
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.27
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.25
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.23
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	94.23
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.21
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.19
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.18
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.18
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.18
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.17
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.16
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.14
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.13
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.12
1g6h_A	257	High-affinity branched-chain amino acid transport	94.12
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.12
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.12
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.11
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.1
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.09
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.08
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.06
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.03
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.03
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.02
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.98
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.97
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.97
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.94
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.94
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.93
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.91
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.91
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.91
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.88
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.87
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.87
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.87
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.87
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.86
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.85
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.85
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.84
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.83
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.82
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.79
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.78
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.78
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.78
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.78
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.73
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.72
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.72
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.7
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.7
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.7
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.69
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.69
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.69
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.66
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.65
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.65
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.62
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.62
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.61
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.6
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.6
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.58
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.57
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.57
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.56
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.55
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.54
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.54
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.52
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.51
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.5
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.47
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.46
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.46
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.46
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.44
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.44
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.42
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.38
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.36
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.34
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.29
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.28
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.27
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.26
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.26
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.26
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.21
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.19
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.15
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.14
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.12
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.11
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.1
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.09
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.06
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.05
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.02
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.02
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.01
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.0
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	92.99
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.98
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	92.97
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.97
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.97
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.92
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.91
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.9
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.89
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.89
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.89
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.88
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.86
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	92.85
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.84
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.82
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.82
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.79
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.78
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	92.78
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	92.76
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.75
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.7
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.69
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.64
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.64
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.62
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.59
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.58
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	92.57
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.54
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	92.52
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.5
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	92.5
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.49
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	92.49
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.48
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.47
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	92.43
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.38
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	92.37
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	92.36
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	92.31
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	92.25
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.24
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.22
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	92.21
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.18
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	92.17
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	92.17
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	92.08
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.08
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	92.06
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.0
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.97
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.95
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.92
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.9
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.82
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.82
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.82
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	91.77
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	91.76
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.71
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	91.7
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.68
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.65
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	91.61
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.51
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	91.51
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	91.47
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	91.35
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	91.34
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	91.32
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.32
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	91.31
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.3
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.27
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	91.2
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	91.16
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	91.16
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	90.99
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	90.97

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4.8e-40  Score=332.00  Aligned_cols=214  Identities=23%  Similarity=0.305  Sum_probs=177.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      +..+|++|+|.+++|++|.+.+..++.+|+.|.++|+++|+|+|||||||||||++|+|+|++++.+|+.++++++.   
T Consensus       143 p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~  222 (405)
T 4b4t_J          143 PDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKY  222 (405)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccc
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999998763   


Q ss_pred             ---ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...                        +.....++++||+.|||+.+.  ++++||+|||+|+.|
T Consensus       223 vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~V~vIaATNrpd~L  300 (405)
T 4b4t_J          223 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS--KNIKIIMATNRLDIL  300 (405)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC--CCEEEEEEESCSSSS
T ss_pred             cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC--CCeEEEeccCChhhC
Confidence               346789999877654                        112346799999999999765  449999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||||+||||||++|+||+|+.++|.+|++.++.........++..++.. .|||+|||..+|..+.    ..+......+
T Consensus       301 DpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~Air~~~~~vt~~  380 (405)
T 4b4t_J          301 DPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRERRIHVTQE  380 (405)
T ss_dssp             CHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSBCCHH
T ss_pred             CHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCCcCHH
Confidence            9999999999999999999999999999999875443322345666664 4999999998876421    1122234567


Q ss_pred             HHHHHHHHHHH
Q 035603          393 NLIEALKAAKE  403 (431)
Q Consensus       393 ~l~~~l~~~~~  403 (431)
                      ++..|+++...
T Consensus       381 Df~~Al~~v~~  391 (405)
T 4b4t_J          381 DFELAVGKVMN  391 (405)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            78888876644

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1e-39  Score=330.59  Aligned_cols=214  Identities=20%  Similarity=0.280  Sum_probs=176.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      +..+|++|+|.+++|++|.+.+..|+.++++|..+|+++|+|+|||||||||||++|+|+|++++.+|+.++.+++.   
T Consensus       177 p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~  256 (437)
T 4b4t_I          177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKY  256 (437)
T ss_dssp             CCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSS
T ss_pred             CCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhcc
Confidence            44899999999999999999999999999999999999999999999999999999999999999999999988763   


Q ss_pred             ---ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...                        ......++++||+.+||+...  ++++||+|||+|+.|
T Consensus       257 vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~--~~ViVIaATNrpd~L  334 (437)
T 4b4t_I          257 LGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR--GDVKVIMATNKIETL  334 (437)
T ss_dssp             SSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS--SSEEEEEEESCSTTC
T ss_pred             CchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC--CCEEEEEeCCChhhc
Confidence               345688888877654                        112356899999999999654  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||||+||||||++|+|++|+.++|++|++.|+.........+++.++.. .|||+|||..+|..+.    .........+
T Consensus       335 DpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~Air~~~~~It~e  414 (437)
T 4b4t_I          335 DPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRERRMQVTAE  414 (437)
T ss_dssp             CTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSCBCHH
T ss_pred             CHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHH
Confidence            9999999999999999999999999999999875443322245666663 4999999998876421    1112234567


Q ss_pred             HHHHHHHHHHH
Q 035603          393 NLIEALKAAKE  403 (431)
Q Consensus       393 ~l~~~l~~~~~  403 (431)
                      +|..|+++...
T Consensus       415 Df~~Al~rv~~  425 (437)
T 4b4t_I          415 DFKQAKERVMK  425 (437)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            77777776544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=5.3e-39  Score=328.83  Aligned_cols=213  Identities=21%  Similarity=0.317  Sum_probs=176.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      +..+|++|+|.+++|++|.+.+..|+.+|+.|.++|+++|+|+|||||||||||++|+|+|++++.+|+.++++++.   
T Consensus       176 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~  255 (437)
T 4b4t_L          176 GEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKY  255 (437)
T ss_dssp             CSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSS
T ss_pred             CCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhcccc
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999998763   


Q ss_pred             ---ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...                        +.....++++||+.|||+.+.  ++++||+|||+|+.|
T Consensus       256 ~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~vivI~ATNrp~~L  333 (437)
T 4b4t_L          256 IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL--GQTKIIMATNRPDTL  333 (437)
T ss_dssp             SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCT--TSSEEEEEESSTTSS
T ss_pred             chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCC--CCeEEEEecCCchhh
Confidence               345688888877654                        112356789999999999765  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||||+||||||++|+||+|+.++|..|++.|+.........++..++.. .|||+|||..+|..+.    ..+......+
T Consensus       334 DpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA~~~air~~~~~i~~~  413 (437)
T 4b4t_L          334 DPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDDRDHINPD  413 (437)
T ss_dssp             CTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHHHTTCSSBCHH
T ss_pred             CHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCCHH
Confidence            9999999999999999999999999999999875443322345666664 4999999998875421    1112234567


Q ss_pred             HHHHHHHHHH
Q 035603          393 NLIEALKAAK  402 (431)
Q Consensus       393 ~l~~~l~~~~  402 (431)
                      +|..|+++..
T Consensus       414 d~~~Al~~v~  423 (437)
T 4b4t_L          414 DLMKAVRKVA  423 (437)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888887654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=5.2e-39  Score=328.62  Aligned_cols=193  Identities=22%  Similarity=0.308  Sum_probs=164.6

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-  264 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-  264 (431)
                      -.++.+|++|+|.+++|++|.+.+..|+.+|+.|.++|+++|+|+|||||||||||++|+|+|++++.+|+.++++++. 
T Consensus       174 ~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~  253 (434)
T 4b4t_M          174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQ  253 (434)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCS
T ss_pred             CCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhh
Confidence            3455899999999999999999999999999999999999999999999999999999999999999999999998863 


Q ss_pred             -----ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC
Q 035603          265 -----NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD  315 (431)
Q Consensus       265 -----~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~  315 (431)
                           +...++.+|..+...                        ......++++||+.|||+.+.  ++++||+|||+|+
T Consensus       254 ~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~--~~ViVIaaTNrp~  331 (434)
T 4b4t_M          254 MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD--DRVKVLAATNRVD  331 (434)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS--CSSEEEEECSSCC
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC--CCEEEEEeCCCch
Confidence                 345688888766544                        012245789999999999765  4599999999999


Q ss_pred             CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          316 KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       316 ~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      .|||||+||||||++|+||+|+.++|.+|++.|+.........++..++.. .|||+|||..+|..
T Consensus       332 ~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~e  397 (434)
T 4b4t_M          332 VLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVE  397 (434)
T ss_dssp             CCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHH
T ss_pred             hcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999875433222235566663 49999999988763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.6e-38  Score=324.69  Aligned_cols=191  Identities=24%  Similarity=0.343  Sum_probs=164.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      +..+|++|+|.+++|+.|.+.+..|+.++++|.++|+++|||+|||||||||||++|+|+|++++.+|+.++++++.   
T Consensus       167 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~  246 (428)
T 4b4t_K          167 PDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKY  246 (428)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSS
T ss_pred             CCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccc
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999998763   


Q ss_pred             ---ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...                        +.....++++||+.|||+.+.++  ++||+|||+|+.|
T Consensus       247 ~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~--v~vI~aTN~~~~L  324 (428)
T 4b4t_K          247 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTN--VKVIMATNRADTL  324 (428)
T ss_dssp             CSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCS--EEEEEEESCSSSC
T ss_pred             cchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCC--EEEEEecCChhhc
Confidence               346688999877554                        11235689999999999976544  9999999999999


Q ss_pred             ChhhhccCceeEEEEcC-CCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          318 DPALIRRGRMDKHIEMP-YCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~-~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      ||||+||||||++|+|| +|+.++|+.|++.++.........++..++.. .|||+|||..+|..
T Consensus       325 D~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~e  389 (428)
T 4b4t_K          325 DPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQE  389 (428)
T ss_dssp             CHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             ChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHHH
Confidence            99999999999999997 89999999999999865433222345666663 49999999988763

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.5e-38  Score=323.25  Aligned_cols=214  Identities=21%  Similarity=0.259  Sum_probs=174.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      +..+|++|+|.+++|++|.+.+..++.+++.|.++|+++|+|+|||||||||||++|+|+|++++.+|+.++++++.   
T Consensus       204 P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~  283 (467)
T 4b4t_H          204 PDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKY  283 (467)
T ss_dssp             CSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCS
T ss_pred             CCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhccc
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999998763   


Q ss_pred             ---ChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...                        ......+++++|+.|||+...  ++++||+|||+|+.|
T Consensus       284 vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~ViVIaATNrpd~L  361 (467)
T 4b4t_H          284 VGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPR--GNIKVMFATNRPNTL  361 (467)
T ss_dssp             SSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCT--TTEEEEEECSCTTSB
T ss_pred             CCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCC--CcEEEEeCCCCcccC
Confidence               346688898877654                        112245789999999999654  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||||+||||||++|+|++|+.++|++|++.++.........++..++.. .|||+|||..+|..+.    ..+......+
T Consensus       362 DpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air~~~~~it~~  441 (467)
T 4b4t_H          362 DPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEK  441 (467)
T ss_dssp             CHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHTCSSBCHH
T ss_pred             ChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCccCHH
Confidence            9999999999999999999999999999999875443322235555553 4999999998876421    1111223456


Q ss_pred             HHHHHHHHHHH
Q 035603          393 NLIEALKAAKE  403 (431)
Q Consensus       393 ~l~~~l~~~~~  403 (431)
                      +|..|+++...
T Consensus       442 Df~~Al~kV~~  452 (467)
T 4b4t_H          442 DFLKAVDKVIS  452 (467)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            77777766543

>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=99.97  E-value=3e-33  Score=304.56  Aligned_cols=190  Identities=21%  Similarity=0.307  Sum_probs=147.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      +..+|++|+|.+++|+.|.+.+..++.+++.|.+.|+.+++|+|||||||||||++|+|+|++++.+++.++.+++    
T Consensus       472 p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~  551 (806)
T 3cf2_A          472 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW  551 (806)
T ss_dssp             CCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTT
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccc
Confidence            4488999999999999999999999999999999999999999999999999999999999999999999988765    


Q ss_pred             --CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        +++..++++|..+...                        +....+.+++||++|||+.+.  ++++||+|||+|+.|
T Consensus       552 vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~--~~V~vi~aTN~p~~l  629 (806)
T 3cf2_A          552 FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK--KNVFIIGATNRPDII  629 (806)
T ss_dssp             CSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSS--SSEEEECC-CCSSSS
T ss_pred             cchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCC--CCEEEEEeCCCchhC
Confidence              4667899999888653                        112356899999999999664  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~  379 (431)
                      |||++||||||.+|++|+|+.++|++|++.++.........++..+++.+ |||+|||.++|.
T Consensus       630 D~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~  692 (806)
T 3cf2_A          630 DPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQ  692 (806)
T ss_dssp             CHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHH
T ss_pred             CHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999998755433334566777644 999999998876

>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=99.97  E-value=2.5e-31  Score=289.48  Aligned_cols=189  Identities=23%  Similarity=0.273  Sum_probs=164.9

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      ..+|++|+|.+++|++|.+.+..++.+|+.|..+|+.+|+|+|||||||||||+||+++|++++.+++.++++++     
T Consensus       200 ~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~  279 (806)
T 3cf2_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  279 (806)
T ss_dssp             SCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCT
T ss_pred             CCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccc
Confidence            378999999999999999999999999999999999999999999999999999999999999999999998765     


Q ss_pred             -CChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          264 -ENNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                       ++...++.+|..+...                     .......+++||..|||+.+..  +++||+|||+++.|||||
T Consensus       280 gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~--~V~VIaaTN~~d~LD~AL  357 (806)
T 3cf2_A          280 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAATNRPNSIDPAL  357 (806)
T ss_dssp             THHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGG--CEEEEEECSSTTTSCTTT
T ss_pred             hHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccC--CEEEEEecCChhhcCHHH
Confidence             2346788999887654                     2334678999999999997654  499999999999999999


Q ss_pred             hccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          322 IRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       322 lRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      +||||||++|+++.|+.++|++|++.++.........++..++.. .||+++||..++.
T Consensus       358 rR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~  416 (806)
T 3cf2_A          358 RRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS  416 (806)
T ss_dssp             TSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHH
T ss_pred             hCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHH
Confidence            999999999999999999999999999875544333446667764 4999999997766

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.96  E-value=1.6e-28  Score=237.98  Aligned_cols=190  Identities=21%  Similarity=0.278  Sum_probs=150.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC--
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN--  265 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~--  265 (431)
                      +..+|++|+|.+++|+.|.+.+..++.++..|..+|...++|+||+||||||||+|+++||++++..++.++..++..  
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~   84 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMY   84 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSST
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhh
Confidence            347899999999999999999999999999999999999999999999999999999999999999999998877632  


Q ss_pred             ----hHHHHHHHHHhhhc----------c-----------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          266 ----NNELRSLLVDISSK----------K-----------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       266 ----~~~l~~l~~~~~~~----------~-----------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                          ...+..+|..+...          +           ......++.++..|||....  ..++++++||+|+.||||
T Consensus        85 ~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~--~~~i~ia~tn~p~~LD~a  162 (274)
T 2x8a_A           85 VGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEAR--QQVFIMAATNRPDIIDPA  162 (274)
T ss_dssp             THHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCST--TCEEEEEEESCGGGSCHH
T ss_pred             hhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhccccc--CCEEEEeecCChhhCCHh
Confidence                23466777765322          0           01235678999999998543  448999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhc---chhHHHHHhHhc---cCCCCHHHHHHHhc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES---HELFHEIGSLLG---ETDITPADVAENLM  379 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~---~~~~~~i~~l~~---~~~~s~adI~~~l~  379 (431)
                      ++||||||.+|++++|+.++|.+|++.++....   .....++..++.   ..|||+|||..+|.
T Consensus       163 l~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~  227 (274)
T 2x8a_A          163 ILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVR  227 (274)
T ss_dssp             HHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHH
T ss_pred             hcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHH
Confidence            999999999999999999999999999885321   112223555665   33999999998776

>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=99.95  E-value=1.3e-27  Score=234.37  Aligned_cols=190  Identities=21%  Similarity=0.308  Sum_probs=158.0

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      ++.+|++|+|.+++++.|.+.+..++..++.|...|++.++++|||||||||||++|+++|++++.+++.++++++    
T Consensus        10 ~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~   89 (301)
T 3cf0_A           10 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW   89 (301)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhh
Confidence            5588999999999999999999999999999999999999999999999999999999999999999999987764    


Q ss_pred             --CChHHHHHHHHHhhhc-------c-----------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK-------K-----------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~-------~-----------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        .....++.+|..+...       +                 ......++.||+.+|++..  ..+++||+|||+++.|
T Consensus        90 ~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~--~~~v~vi~atn~~~~l  167 (301)
T 3cf0_A           90 FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST--KKNVFIIGATNRPDII  167 (301)
T ss_dssp             HTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT--TSSEEEEEEESCGGGS
T ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC--CCCEEEEEecCCcccc
Confidence              2345577777766542       1                 1224467899999999854  3459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~  379 (431)
                      |++++|||||+..|+++.|+.++|..|++.++.........++..++. ..||+++||.+++.
T Consensus       168 d~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~~g~sg~dl~~l~~  230 (301)
T 3cf0_A          168 DPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQ  230 (301)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTCSSCCHHHHHHHHH
T ss_pred             ChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHHcCCCCHHHHHHHHH
Confidence            999999999999999999999999999999986543221122344444 44999999998776

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.94  E-value=4e-26  Score=218.01  Aligned_cols=193  Identities=21%  Similarity=0.306  Sum_probs=149.7

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE  264 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~  264 (431)
                      +..++.+|++|+|.+++++.|.+.+ .++..+..|...|...++|+||+||||||||++++++|++++.+++.++++.+.
T Consensus         4 ~~~~~~~~~~i~G~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~   82 (257)
T 1lv7_A            4 EDQIKTTFADVAGCDEAKEEVAELV-EYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFV   82 (257)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHH-HHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSST
T ss_pred             ccCCCCCHHHhcCcHHHHHHHHHHH-HHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHH
Confidence            3456789999999999999998755 557788889999999999999999999999999999999999999999987752


Q ss_pred             ------ChHHHHHHHHHhhhc---------------c---------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCC
Q 035603          265 ------NNNELRSLLVDISSK---------------K---------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV  314 (431)
Q Consensus       265 ------~~~~l~~l~~~~~~~---------------~---------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~  314 (431)
                            ....++.+|..+...               .         ......++.+|..+|++...  .+++||+|||++
T Consensus        83 ~~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--~~~~vI~~tn~~  160 (257)
T 1lv7_A           83 EMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRP  160 (257)
T ss_dssp             TSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS--SCEEEEEEESCT
T ss_pred             HHhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC--CCEEEEEeeCCc
Confidence                  345677777765432               0         01125788999999998543  459999999999


Q ss_pred             CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          315 DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      +.||++++|||||+..|+++.|+.++|.+|++.++..........+..++.. .|++++||..++..
T Consensus       161 ~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~~~  227 (257)
T 1lv7_A          161 DVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNE  227 (257)
T ss_dssp             TTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             hhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999998764322211223344443 48999999977653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.94  E-value=5.2e-26  Score=219.99  Aligned_cols=217  Identities=21%  Similarity=0.240  Sum_probs=167.6

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE  264 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~  264 (431)
                      ...++.+|++|+|.+++++.|.+.+..++..++.|..+|...++++||+||||||||++|+++|++++.+++.+++..+.
T Consensus         9 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~   88 (285)
T 3h4m_A            9 DERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELV   88 (285)
T ss_dssp             ESSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGC
T ss_pred             cCCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHH
Confidence            44556889999999999999999999999999999999999999999999999999999999999999999999887762


Q ss_pred             C------hHHHHHHHHHhhhc-------c-----------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCC
Q 035603          265 N------NNELRSLLVDISSK-------K-----------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV  314 (431)
Q Consensus       265 ~------~~~l~~l~~~~~~~-------~-----------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~  314 (431)
                      .      ...+..+|..+...       +                 ......+..+++.+++....  .+++||+|||.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~--~~~~vI~ttn~~  166 (285)
T 3h4m_A           89 KKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDAR--GDVKIIGATNRP  166 (285)
T ss_dssp             CCSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSS--SSEEEEEECSCG
T ss_pred             HhccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCC--CCEEEEEeCCCc
Confidence            2      23455566554332       0                 11235677888888887543  459999999999


Q ss_pred             CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccC----CCCCHHH
Q 035603          315 DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKS----DEDDAGT  389 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~----~~~~~~~  389 (431)
                      +.||++++|||||+..++++.|+.++|.+|++.++.........++..++. ..|+++++|..++..+.    .......
T Consensus       167 ~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~~~~I  246 (285)
T 3h4m_A          167 DILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYV  246 (285)
T ss_dssp             GGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHTTCSSB
T ss_pred             hhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccCcC
Confidence            999999999999999999999999999999999886443322223455555 34999999998765411    1112234


Q ss_pred             HHHHHHHHHHHHHH
Q 035603          390 CLKNLIEALKAAKE  403 (431)
Q Consensus       390 ~l~~l~~~l~~~~~  403 (431)
                      ..+++.++++....
T Consensus       247 ~~~d~~~al~~~~~  260 (285)
T 3h4m_A          247 TMDDFRKAVEKIME  260 (285)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            45666666666543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.94  E-value=1.3e-25  Score=222.48  Aligned_cols=188  Identities=22%  Similarity=0.235  Sum_probs=155.4

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEecccCcC--
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-NYDVYDLELTSVE--  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~~~~~~--  264 (431)
                      ++.+|++|+|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|+++ +.+++.++++++.  
T Consensus         7 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~   85 (322)
T 1xwi_A            7 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSK   85 (322)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCS
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhh
Confidence            4588999999999999999999999999988874 35667999999999999999999999999 8899999887752  


Q ss_pred             ----ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          265 ----NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                          ....++.+|..+...                     .......+++||..+|++.. ...+++||+|||+++.||+
T Consensus        86 ~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~~v~vI~atn~~~~ld~  164 (322)
T 1xwi_A           86 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVLDS  164 (322)
T ss_dssp             SCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSS-CCTTEEEEEEESCTTTSCH
T ss_pred             hhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccc-cCCCEEEEEecCCcccCCH
Confidence                345677777665432                     11234578899999999853 2356999999999999999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhccC-CCCHHHHHHHhc
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGET-DITPADVAENLM  379 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~adI~~~l~  379 (431)
                      +++|  ||+..|++++|+.++|..|++.++...... ...++..++..+ |||++||..++.
T Consensus       165 al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          165 AIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             HHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             HHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            9999  999999999999999999999998654432 344567777744 999999997765

>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=99.94  E-value=4.1e-26  Score=236.48  Aligned_cols=211  Identities=24%  Similarity=0.325  Sum_probs=163.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      .+.+|++|+|.+++|+++.+.+ .++..+..|..+|...++|+||+||||||||++|+++|++++.+++.++++++.   
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v-~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~   89 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVV-EFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELF   89 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHH-HHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCC
T ss_pred             CCCCHHHhCCcHHHHHHHHHHH-HHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHH
Confidence            4578999999999999998765 567888999999999999999999999999999999999999999999987752   


Q ss_pred             ---ChHHHHHHHHHhhhc-------c-----------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ---NNNELRSLLVDISSK-------K-----------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~-------~-----------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         +...++.+|..+...       +                 .....++++||..||++...  .+++||+|||+++.|
T Consensus        90 ~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~--~~viVIaaTn~~~~L  167 (476)
T 2ce7_A           90 VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK--EGIIVMAATNRPDIL  167 (476)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG--GTEEEEEEESCGGGS
T ss_pred             hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC--CCEEEEEecCChhhh
Confidence               234577777776543       0                 11235789999999988553  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||+++||||||..|.++.|+.++|+.|++.++.........++..++.. .|++++||.+++..+.    .........+
T Consensus       168 d~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~A~~~~~~~I~~~  247 (476)
T 2ce7_A          168 DPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDKITMK  247 (476)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCSSBCHH
T ss_pred             chhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHHHHHHHHHHcCCCeecHH
Confidence            9999999999999999999999999999998865332211224455553 4999999998775411    1111223445


Q ss_pred             HHHHHHHHH
Q 035603          393 NLIEALKAA  401 (431)
Q Consensus       393 ~l~~~l~~~  401 (431)
                      ++..++.+.
T Consensus       248 dl~~al~~v  256 (476)
T 2ce7_A          248 DFEEAIDRV  256 (476)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=99.94  E-value=5e-26  Score=216.90  Aligned_cols=189  Identities=22%  Similarity=0.322  Sum_probs=145.9

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC---
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN---  265 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~---  265 (431)
                      +.+|++|+|.+++|+.|.+.+ .++..++.|...|.+.++++|||||||||||++|+++|++++.+++.++++.+..   
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~-~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFV-DYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHH-HHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCHHHhCCHHHHHHHHHHHH-HHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            578999999999999998765 4578888999999999999999999999999999999999999999999887532   


Q ss_pred             ---hHHHHHHHHHhhhc-------c------------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          266 ---NNELRSLLVDISSK-------K------------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       266 ---~~~l~~l~~~~~~~-------~------------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                         ...+..+|..+...       +                  ......+..+|+.+++...  ...++||+|||.++.|
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~--~~~~~vi~~tn~~~~l  158 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT--TDHVIVLASTNRADIL  158 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT--TCCEEEEEEESCGGGG
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC--CCCEEEEecCCChhhc
Confidence               24566677665432       0                  1123467889999998754  3459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHH--HHHhHhcc-CCCCHHHHHHHhcc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFH--EIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~--~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      |++++|||||+..+++++|+.++|.+|++.++.........  .+..++.. .|+++++|..++..
T Consensus       159 d~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~  224 (262)
T 2qz4_A          159 DGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNE  224 (262)
T ss_dssp             GSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999998654332222  23455553 49999999877654

>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=99.93  E-value=3.2e-25  Score=219.27  Aligned_cols=191  Identities=20%  Similarity=0.237  Sum_probs=156.5

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE  264 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~  264 (431)
                      .-.++.+|++|+|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|++++.+++.++++.+.
T Consensus        10 ~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~   88 (322)
T 3eie_A           10 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV   88 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             ecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHh
Confidence            4456789999999999999999999999999988876 455578999999999999999999999999999999987652


Q ss_pred             ------ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ------NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ------~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                            ....++.+|..+...                     ........+.||..++++... ..+++||+|||+++.|
T Consensus        89 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~~v~vi~atn~~~~l  167 (322)
T 3eie_A           89 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND-SQGVLVLGATNIPWQL  167 (322)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS-CCCEEEEEEESCGGGS
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc-CCceEEEEecCChhhC
Confidence                  234567777665543                     112345689999999998533 3469999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhccC-CCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGET-DITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~adI~~~l~  379 (431)
                      |++++|  ||+..|+++.|+.++|.+|++.++...... ....+..++..+ |++++||..++.
T Consensus       168 d~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          168 DSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             CHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             CHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            999999  999999999999999999999998754432 344567777644 999999997764

>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=99.92  E-value=1.2e-24  Score=218.25  Aligned_cols=189  Identities=21%  Similarity=0.257  Sum_probs=152.3

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc---
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV---  263 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~---  263 (431)
                      .++.+|++|+|.+++++.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|++++.+++.++++++   
T Consensus        45 ~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~  123 (355)
T 2qp9_X           45 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK  123 (355)
T ss_dssp             --CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSC
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhh
Confidence            35688999999999999999999999999988876 56677899999999999999999999999999999987764   


Q ss_pred             ---CChHHHHHHHHHhhhc-------c--------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh
Q 035603          264 ---ENNNELRSLLVDISSK-------K--------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP  319 (431)
Q Consensus       264 ---~~~~~l~~l~~~~~~~-------~--------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  319 (431)
                         .....++.+|..+...       +              .......++||..||++... ..+++||+|||+++.||+
T Consensus       124 ~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~-~~~v~vI~atn~~~~ld~  202 (355)
T 2qp9_X          124 WMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND-SQGVLVLGATNIPWQLDS  202 (355)
T ss_dssp             C---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC----CCEEEEEEESCGGGSCH
T ss_pred             hcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc-CCCeEEEeecCCcccCCH
Confidence               2345567777665432       1              11245688999999988542 345999999999999999


Q ss_pred             hhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          320 ALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       320 AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      +++|  ||+..|++++|+.++|..|++.++...... ...++..++.. .||+++||..+|.
T Consensus       203 al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~  262 (355)
T 2qp9_X          203 AIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVK  262 (355)
T ss_dssp             HHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            9999  999999999999999999999998754432 23456666664 4999999997765

>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=99.91  E-value=2.6e-24  Score=224.20  Aligned_cols=190  Identities=22%  Similarity=0.264  Sum_probs=158.4

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      .+.+|++|+|.+.+++.|.+.+..++..++.|..+|.+.++++|||||||||||++|+++|++++.+++.++++.+.   
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~  278 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  278 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhh
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999987652   


Q ss_pred             ---ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          265 ---NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                         ....++.+|..+...                     ........+.||..|++....  ..++||+|||+++.||++
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~--~~v~vIaaTn~~~~Ld~a  356 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAATNRPNSIDPA  356 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTT--SCEEEEEEESCGGGBCGG
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccC--CceEEEEecCCccccCHH
Confidence               234567777766543                     111236788999999987543  459999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ++|+|||+..|+++.|+.++|.+|++.++.........++..++.. .|++++||..++.
T Consensus       357 l~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~~L~~  416 (489)
T 3hu3_A          357 LRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS  416 (489)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             HhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHHHHHH
Confidence            9999999999999999999999999998864433322235556653 4999999987764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.91  E-value=1.8e-24  Score=225.44  Aligned_cols=211  Identities=23%  Similarity=0.308  Sum_probs=161.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC--
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN--  265 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~--  265 (431)
                      ++.+|++|+|.+++|+++.+.+ .++..+..|..+|...++|+||+||||||||+|+++||++++.+++.++.+++..  
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv-~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~  104 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  104 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHH-HHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSC
T ss_pred             CCCCHHHcCCcHHHHHHHHHHH-HHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhh
Confidence            5689999999999999997754 5677888899999999999999999999999999999999999999999877532  


Q ss_pred             ----hHHHHHHHHHhhhc----------------cc--------chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          266 ----NNELRSLLVDISSK----------------KK--------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       266 ----~~~l~~l~~~~~~~----------------~~--------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                          ...++.+|..+...                ..        ....++++||..|||...  ...+++|++||+|+.|
T Consensus       105 ~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~--~~~viviAatn~p~~L  182 (499)
T 2dhr_A          105 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRPDIL  182 (499)
T ss_dssp             TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS--SCCCEEEECCSCGGGS
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc--CccEEEEEecCChhhc
Confidence                24566777665421                00        113578899999999854  3448999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLK  392 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~  392 (431)
                      ||+++||||||++|+++.|+.++|.+|++.++.........++..++.. .|++++||.+++..+.    .........+
T Consensus       183 D~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~~~~~~It~~  262 (499)
T 2dhr_A          183 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMK  262 (499)
T ss_dssp             CTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTTTCCSSCCSH
T ss_pred             CcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhCCCccCHH
Confidence            9999999999999999999999999999988753222212224455554 3999999998775411    1111234446


Q ss_pred             HHHHHHHHH
Q 035603          393 NLIEALKAA  401 (431)
Q Consensus       393 ~l~~~l~~~  401 (431)
                      ++..++++.
T Consensus       263 dl~~al~~v  271 (499)
T 2dhr_A          263 DLEEAADRV  271 (499)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666554

>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=99.91  E-value=1.1e-23  Score=200.77  Aligned_cols=190  Identities=23%  Similarity=0.316  Sum_probs=148.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--  264 (431)
                      .++.+|++++|.++++.++.+.+ ..+..+..+...+...++|++|+||||||||+|+++||+.++..++.++...+.  
T Consensus        10 ~~~~~~~~i~g~~~~~~~l~~l~-~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~   88 (254)
T 1ixz_A           10 APKVTFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   88 (254)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHH-HHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHH-HHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHH
Confidence            34589999999999999997754 456778899999999999999999999999999999999999999988765431  


Q ss_pred             ----ChHHHHHHHHHhhhc-------cc-----------------chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ----NNNELRSLLVDISSK-------KK-----------------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~-------~~-----------------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                          ....+..+|......       +.                 .....++.+++.++|...  +..++++++||+|+.
T Consensus        89 ~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~--~~~~i~~a~t~~p~~  166 (254)
T 1ixz_A           89 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRPDI  166 (254)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT--TCCEEEEEEESCGGG
T ss_pred             HhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCC--CCCEEEEEccCCchh
Confidence                123456666665421       00                 113456789999998754  334789999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ||++++||||||..|+++.|+.++|..|++.+..........++..++.. .|++++||..++.
T Consensus       167 ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~  230 (254)
T 1ixz_A          167 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  230 (254)
T ss_dssp             SCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            99999999999999999999999999999988753322212224455553 4999999987776

>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=99.91  E-value=5.7e-24  Score=219.52  Aligned_cols=189  Identities=21%  Similarity=0.229  Sum_probs=151.8

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEecccCcC-
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-NYDVYDLELTSVE-  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~~~~~~-  264 (431)
                      .++.+|++|+|.+++++.|.+.+..++..+..|.. +..+++|+|||||||||||++|+++|+++ +.+++.++++++. 
T Consensus       128 ~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~  206 (444)
T 2zan_A          128 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS  206 (444)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC----
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHh
Confidence            45689999999999999999999999998888764 34567899999999999999999999999 8999999988762 


Q ss_pred             -----ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          265 -----NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       265 -----~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                           ....++.+|..+...                     .......++.||..+|++.. ...+++||+|||+++.||
T Consensus       207 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~-~~~~v~vI~atn~~~~ld  285 (444)
T 2zan_A          207 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVLD  285 (444)
T ss_dssp             -----CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC-CCSSCEEEEEESCGGGSC
T ss_pred             hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCccc-CCCCEEEEecCCCccccC
Confidence                 223466777655432                     11234678899999999853 235699999999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      |+++|  ||+..|++++|+.++|..|++.++...... ...++..++.. .|||++||..++.
T Consensus       286 ~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          286 SAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             HHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            99999  999999999999999999999998654332 23456666664 4999999997765

>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=99.90  E-value=1.1e-24  Score=208.93  Aligned_cols=191  Identities=25%  Similarity=0.327  Sum_probs=148.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---  264 (431)
                      ++.+|++|+|.+++++.|.+.+ .++..++.|..+|...++|+||+||||||||++|+++|++++.+++.++++.+.   
T Consensus         6 ~~~~~~~i~G~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~   84 (268)
T 2r62_A            6 PNVRFKDMAGNEEAKEEVVEIV-DFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMF   84 (268)
T ss_dssp             CCCCSTTSSSCTTTHHHHHHHH-HHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSC
T ss_pred             CCCCHHHhCCcHHHHHHHHHHH-HHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhh
Confidence            4578999999999999998855 468889999999999999999999999999999999999999999999877652   


Q ss_pred             ---ChHHHHHHHHHhhhc-------ccc------------------hhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ---NNNELRSLLVDISSK-------KKK------------------SNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ---~~~~l~~l~~~~~~~-------~~~------------------~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                         ....++.+|..+...       ++.                  ....++.||+.+++... ....++||+|||.++.
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vi~ttn~~~~  163 (268)
T 2r62_A           85 VGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS-ENAPVIVLAATNRPEI  163 (268)
T ss_dssp             SSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC-SCSCCEEEECBSCCTT
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc-CCCCEEEEEecCCchh
Confidence               122344455444331       111                  11356778888888753 2345899999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      ||++++|||||+..|+++.|+.++|..+++.++..........+..++.. .|++++||.+++..
T Consensus       164 ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~~~  228 (268)
T 2r62_A          164 LDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINE  228 (268)
T ss_dssp             SCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHHHH
T ss_pred             cCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999998864322111224445553 38999999877653

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.89  E-value=1.9e-22  Score=195.07  Aligned_cols=190  Identities=23%  Similarity=0.316  Sum_probs=148.0

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--  264 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--  264 (431)
                      .++.+|++|+|.+++++++.+.+ ..+..+..+..++...++|++|+||||||||+|+++||+.++..++.++...+.  
T Consensus        34 ~~~~~~~~i~g~~~~~~~l~~l~-~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~  112 (278)
T 1iy2_A           34 APKVTFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM  112 (278)
T ss_dssp             CCCCCGGGSSSCHHHHHHHHHHH-HHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHH-HHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHH
Confidence            35689999999999999987654 456778899999999999999999999999999999999999999988765431  


Q ss_pred             ----ChHHHHHHHHHhhhc-------cc-----------------chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC
Q 035603          265 ----NNNELRSLLVDISSK-------KK-----------------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK  316 (431)
Q Consensus       265 ----~~~~l~~l~~~~~~~-------~~-----------------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~  316 (431)
                          ....+..+|......       +.                 .....+..+++.++|...  ...++++++||+|+.
T Consensus       113 ~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~--~~~~i~~a~t~~p~~  190 (278)
T 1iy2_A          113 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRPDI  190 (278)
T ss_dssp             TTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT--TCCEEEEEEESCTTS
T ss_pred             HhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC--CCCEEEEEecCCchh
Confidence                123455666665421       00                 113456788999998753  334789999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ||++++|||||+..|+++.|+.++|..|++.++.........++..++.. .|++++||..++.
T Consensus       191 ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~  254 (278)
T 1iy2_A          191 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  254 (278)
T ss_dssp             SCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            99999999999999999999999999999988753322212224455553 4999999987766

>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=99.89  E-value=1.4e-22  Score=203.29  Aligned_cols=190  Identities=21%  Similarity=0.283  Sum_probs=150.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC--
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN--  265 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~--  265 (431)
                      +|.+|++|+|.+++++.|.+.+..++..++.|...+ ..++++||+||||||||++|+++|++++.+++.++++.+..  
T Consensus        79 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~  157 (357)
T 3d8b_A           79 PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKW  157 (357)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSS
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccc
Confidence            578899999999999999999999998888877665 45789999999999999999999999999999999887632  


Q ss_pred             ----hHHHHHHHHHhhhc-------c--------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChh
Q 035603          266 ----NNELRSLLVDISSK-------K--------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       266 ----~~~l~~l~~~~~~~-------~--------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~A  320 (431)
                          ...++.+|..+...       +              ......++.||..+++........++||+|||.++.||++
T Consensus       158 ~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~  237 (357)
T 3d8b_A          158 VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEA  237 (357)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHH
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHH
Confidence                23456666554432       1              1133567889999999865555679999999999999999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhcc-CCCCHHHHHHHhcc
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGE-TDITPADVAENLMP  380 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~-~~~s~adI~~~l~~  380 (431)
                      ++|  ||+..++++.|+.++|..+++.++...... ....+..++.. .|+++++|..++..
T Consensus       238 l~~--Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          238 ARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             HHT--TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHh--hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            999  999999999999999999999987643322 23445666663 49999999877653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.89  E-value=2.5e-22  Score=203.55  Aligned_cols=192  Identities=23%  Similarity=0.283  Sum_probs=153.4

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE  264 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~  264 (431)
                      ...+|.+|++|+|.+.+++.|.+.+..+...++.|...+.+ ++++|||||||||||++|+++|++++.+++.++++.+.
T Consensus       107 ~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~  185 (389)
T 3vfd_A          107 DNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAP-ARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLT  185 (389)
T ss_dssp             CCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCC-CSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-
T ss_pred             ccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCC-CceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhh
Confidence            45578999999999999999999999999988888877744 68999999999999999999999999999999998763


Q ss_pred             ------ChHHHHHHHHHhhhc-------c--------------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          265 ------NNNELRSLLVDISSK-------K--------------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       265 ------~~~~l~~l~~~~~~~-------~--------------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                            ....+..+|..+...       +              .........||..++|........++||+|||+++.|
T Consensus       186 ~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  265 (389)
T 3vfd_A          186 SKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQEL  265 (389)
T ss_dssp             ------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGC
T ss_pred             ccccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhc
Confidence                  234466666655442       1              1245667889999998876556679999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      |++++|  ||+..|+++.|+.++|..|++.++...... ....+..++.. .|+++++|..++.
T Consensus       266 ~~~l~~--R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          266 DEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             CHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CHHHHc--CcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            999999  999999999999999999999988654332 23345666663 4999999987664

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.88  E-value=3.4e-22  Score=194.43  Aligned_cols=190  Identities=20%  Similarity=0.261  Sum_probs=148.5

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC-
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN-  265 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~-  265 (431)
                      .++.+|++|+|.+++++.|.+.+..+...++.|...+ ..++++||+||||||||++|+++|++++.+++.++++.+.. 
T Consensus        15 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~   93 (297)
T 3b9p_A           15 GAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSK   93 (297)
T ss_dssp             SSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhc
Confidence            4678999999999999999999999988888887666 34689999999999999999999999999999999877532 


Q ss_pred             -----hHHHHHHHHHhhhc-------c--------------cchhhHHHHHHHHhcCcccC-CCCceEEEEecCCCCCCC
Q 035603          266 -----NNELRSLLVDISSK-------K--------------KKSNVTLSGLLNCIGGLWST-CGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       266 -----~~~l~~l~~~~~~~-------~--------------~~~~~~~s~lL~~ldg~~~~-~~~~~ivI~TTN~~~~Ld  318 (431)
                           ...++.+|..+...       +              .......+.||..+|+.... .+..++||+|||+++.||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~  173 (297)
T 3b9p_A           94 YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELD  173 (297)
T ss_dssp             SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBC
T ss_pred             ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCC
Confidence                 23455566554432       1              11245677899999987543 234589999999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ++++|  ||+..+++++|+.++|..+++.++...... ....+..++.. .|+++++|..++.
T Consensus       174 ~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~  234 (297)
T 3b9p_A          174 EAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAK  234 (297)
T ss_dssp             HHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            99999  999999999999999999999988654322 23345556653 4999999987664

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.86  E-value=3.8e-22  Score=194.89  Aligned_cols=150  Identities=14%  Similarity=0.115  Sum_probs=111.3

Q ss_pred             HhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC------ChHHHHHHHHHhh----hc-------c---
Q 035603          221 KIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE------NNNELRSLLVDIS----SK-------K---  280 (431)
Q Consensus       221 ~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~~----~~-------~---  280 (431)
                      ..+..+|+|+|||||||||||++|+++|++++.+++.++++++.      ....++.+|..+.    ..       +   
T Consensus        30 ~~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD  109 (293)
T 3t15_A           30 LPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLD  109 (293)
T ss_dssp             CTTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC
T ss_pred             cCCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechh
Confidence            34678889999999999999999999999999999999987652      2345777777662    11       0   


Q ss_pred             ------c-------chhhHHHHHHHHhcCccc---------CCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCH
Q 035603          281 ------K-------KSNVTLSGLLNCIGGLWS---------TCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCF  338 (431)
Q Consensus       281 ------~-------~~~~~~s~lL~~ldg~~~---------~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~  338 (431)
                            .       ......+.|++.||+...         ....+++||+|||+++.||+|++||||||..|++  |+.
T Consensus       110 ~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~~--P~~  187 (293)
T 3t15_A          110 AGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWA--PTR  187 (293)
T ss_dssp             --------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEEC--CCH
T ss_pred             hhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEeC--cCH
Confidence                  0       122456889999986531         1234589999999999999999999999999984  699


Q ss_pred             HHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHH
Q 035603          339 EAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVA  375 (431)
Q Consensus       339 ~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~  375 (431)
                      ++|..|++.++.... .....+..++.  +|++++|.
T Consensus       188 ~~r~~Il~~~~~~~~-~~~~~l~~~~~--~~~~~~l~  221 (293)
T 3t15_A          188 EDRIGVCTGIFRTDN-VPAEDVVKIVD--NFPGQSID  221 (293)
T ss_dssp             HHHHHHHHHHHGGGC-CCHHHHHHHHH--HSCSCCHH
T ss_pred             HHHHHHHHHhccCCC-CCHHHHHHHhC--CCCcccHH
Confidence            999999998886432 22444555554  66776664

>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=99.79  E-value=8.9e-20  Score=186.80  Aligned_cols=149  Identities=16%  Similarity=0.142  Sum_probs=65.7

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCC-CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-------
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK-AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-------  264 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-------  264 (431)
                      +.|+|.+++|+.|...+..+......+...+. .+++++||+||||||||++|+++|+.++.+++.++++.+.       
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            36899999999998888776655544443333 3568999999999999999999999999999999876542       


Q ss_pred             -ChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEe-cCCCCCCChhhhccCcee
Q 035603          265 -NNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFT-TNHVDKLDPALIRRGRMD  328 (431)
Q Consensus       265 -~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~T-TN~~~~Ld~AllRpGRfd  328 (431)
                       ....++.+|..+...              .......+++||+.|||+.+..   .+ +++ ||+++.|||||+||||||
T Consensus        95 d~e~~lr~lf~~a~~~~~~De~d~~~~~~~~~~e~rvl~~LL~~~dg~~~~~---~v-~a~~TN~~~~ld~aL~rggr~D  170 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKLVRQQEIAKNRARAEDVAEERILDALLPPAKNQWGEV---EN-HDSHSSTRQAFRKKLREGQLDD  170 (444)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHSCC------------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhcchhhhhhhhhccchhhHHHHHHHHHHHHhhcccccc---cc-ccccccCHHHHHHHHHcCCCcc
Confidence             244566666554321              3345688999999999996532   23 444 999999999999999999


Q ss_pred             EEEEcCCCCHH-HHHHHH
Q 035603          329 KHIEMPYCCFE-AFKVLA  345 (431)
Q Consensus       329 ~~I~~~~p~~~-~r~~i~  345 (431)
                      ++|+++.|+.. .+.+|+
T Consensus       171 ~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          171 KEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             ------------------
T ss_pred             eEEEEcCCCCccchhhhh
Confidence            99999999987 555553

>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=99.71  E-value=8.2e-19  Score=181.45  Aligned_cols=175  Identities=16%  Similarity=0.097  Sum_probs=114.0

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEecccCcC-
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN--YDVYDLELTSVE-  264 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l~~~~~~-  264 (431)
                      +...|++|+|.+++++.+...+..+.        .|..+++++|||||||||||++|+++|++++  .+++.++++.+. 
T Consensus        32 ~~~~~~~iiG~~~~~~~l~~~~~~~~--------~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~  103 (456)
T 2c9o_A           32 AKQAASGLVGQENAREACGVIVELIK--------SKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYS  103 (456)
T ss_dssp             BCSEETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCC
T ss_pred             hhhchhhccCHHHHHHHHHHHHHHHH--------hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHH
Confidence            34568999999999999877654332        3666779999999999999999999999999  899999988763 


Q ss_pred             ----ChHHHHHHHHHhh---hc---------------ccc-------------------------hhhHHHHHHHHhcCc
Q 035603          265 ----NNNELRSLLVDIS---SK---------------KKK-------------------------SNVTLSGLLNCIGGL  297 (431)
Q Consensus       265 ----~~~~l~~l~~~~~---~~---------------~~~-------------------------~~~~~s~lL~~ldg~  297 (431)
                          ....+.++|..+.   ..               ...                         .....+.++..++..
T Consensus       104 ~~~~~~~~~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~~  183 (456)
T 2c9o_A          104 TEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKE  183 (456)
T ss_dssp             SSSCHHHHHHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHHHT
T ss_pred             HhhhhhHHHHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHhhc
Confidence                2234778887762   11               000                         001223466666532


Q ss_pred             ccCCCCceEEEEecCCCCCCChhhhccCceeE--EEEcCCCC--HHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHH
Q 035603          298 WSTCGGERIIVFTTNHVDKLDPALIRRGRMDK--HIEMPYCC--FEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPA  372 (431)
Q Consensus       298 ~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~--~I~~~~p~--~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a  372 (431)
                      ....++.++|++|||+++.+|+++.||||||.  .+.+|.|+  .++|+++++.+..       .++..++..+ |  ++
T Consensus       184 ~~~~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~-------~dl~~~a~~t~g--ga  254 (456)
T 2c9o_A          184 RVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL-------HDLDVANARPQG--GQ  254 (456)
T ss_dssp             TCCTTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH-------HHHHHTC---------
T ss_pred             cCCCCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH-------HHHHHHHHhCCC--hh
Confidence            22344556667999999999999999999999  56667774  4667766554431       2456666543 6  88


Q ss_pred             HHHHHhc
Q 035603          373 DVAENLM  379 (431)
Q Consensus       373 dI~~~l~  379 (431)
                      |+..++.
T Consensus       255 dl~~l~~  261 (456)
T 2c9o_A          255 DILSMMG  261 (456)
T ss_dssp             -------
T ss_pred             HHHHHHh
Confidence            9887774

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.71  E-value=5.3e-16  Score=153.35  Aligned_cols=188  Identities=13%  Similarity=0.128  Sum_probs=134.6

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ..|.  ..-.|.+|++++|.+.+++.+...+......        .....++||+||||||||++|+++|+.++.+++.+
T Consensus        17 ~~~~--~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~   86 (338)
T 3pfi_A           17 ETYE--TSLRPSNFDGYIGQESIKKNLNVFIAAAKKR--------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTT   86 (338)
T ss_dssp             --------CCCCSGGGCCSCHHHHHHHHHHHHHHHHT--------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEE
T ss_pred             hhhh--hccCCCCHHHhCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEe
Confidence            3565  4457889999999999999988877655431        23456899999999999999999999999999999


Q ss_pred             cccCcCChHHHHHHHHHhhhc--------ccchhhHHHHHHHHhcCccc--------------CCCCceEEEEecCCCCC
Q 035603          259 ELTSVENNNELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLWS--------------TCGGERIIVFTTNHVDK  316 (431)
Q Consensus       259 ~~~~~~~~~~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~~--------------~~~~~~ivI~TTN~~~~  316 (431)
                      ++..+.....+...+......        +.........|+..++....              .....+++|++||....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~  166 (338)
T 3pfi_A           87 AAPMIEKSGDLAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGM  166 (338)
T ss_dssp             EGGGCCSHHHHHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGG
T ss_pred             cchhccchhHHHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccc
Confidence            998887777777777653332        23335566777777765320              00113789999999999


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhccCCCCHHHHHHHh
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~~~~~s~adI~~~l  378 (431)
                      ++++|++  ||+..|+++.|+.+++..+++.+........ .+.+..++...+-++.++.+.+
T Consensus       167 l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          167 LSNPLRD--RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             SCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             cCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            9999999  9999999999999999999998876433222 2233444443344555555443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.66  E-value=1.2e-15  Score=148.58  Aligned_cols=152  Identities=18%  Similarity=0.235  Sum_probs=118.9

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCc---eeEEeCCCCCcHHHHHHHHHHHcC-------CCeEEecccCc
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKR---GYLLFGPPGTGKSTMIAAMANCLN-------YDVYDLELTSV  263 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~r---g~LL~GPPGtGKTsla~aiA~~l~-------~~i~~l~~~~~  263 (431)
                      +|+|.+++|+.|.+.+..+.. +..+.+.|+..++   ++||+||||||||++|+++|+.++       .+++.+++..+
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            689999999999988877654 6777777866543   599999999999999999999884       37888888766


Q ss_pred             CC------hHHHHHHHHHhhhc-------c---------cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC-----C
Q 035603          264 EN------NNELRSLLVDISSK-------K---------KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD-----K  316 (431)
Q Consensus       264 ~~------~~~l~~l~~~~~~~-------~---------~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~-----~  316 (431)
                      ..      ...+..+|..+...       +         ......++.|++.++..    ..++++|+|||..+     .
T Consensus       111 ~~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~----~~~~~~i~~~~~~~~~~~~~  186 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENN----RDDLVVILAGYADRMENFFQ  186 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHC----TTTCEEEEEECHHHHHHHHH
T ss_pred             hhhcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcC----CCCEEEEEeCChHHHHHHHh
Confidence            22      34456666655433       1         22566778899988853    34588999998654     3


Q ss_pred             CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          317 LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       317 Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      ++|+|++  ||+.+|+|+.|+.+++..|++.++...
T Consensus       187 ~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~~  220 (309)
T 3syl_A          187 SNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQ  220 (309)
T ss_dssp             HSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHHT
T ss_pred             hCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHHc
Confidence            6899999  999999999999999999999998653

>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=99.63  E-value=4.1e-15  Score=145.68  Aligned_cols=181  Identities=15%  Similarity=0.141  Sum_probs=131.4

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      .|.+|++++|.+..++.+.+.+......       + ..++++||+||||||||++|+++|+.++.+++.++++.+....
T Consensus         7 ~p~~~~~~ig~~~~~~~l~~~l~~~~~~-------~-~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~   78 (324)
T 1hqc_A            7 RPKTLDEYIGQERLKQKLRVYLEAAKAR-------K-EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG   78 (324)
T ss_dssp             CCCSTTTCCSCHHHHHHHHHHHHHHHHH-------C-SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHH
T ss_pred             CcccHHHhhCHHHHHHHHHHHHHHHHcc-------C-CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChH
Confidence            6789999999999999888776554321       1 2356899999999999999999999999999999998887777


Q ss_pred             HHHHHHHH-hhhc--------ccchhhHHHHHHHHhcCccc-----C---------CCCceEEEEecCCCCCCChhhhcc
Q 035603          268 ELRSLLVD-ISSK--------KKKSNVTLSGLLNCIGGLWS-----T---------CGGERIIVFTTNHVDKLDPALIRR  324 (431)
Q Consensus       268 ~l~~l~~~-~~~~--------~~~~~~~~s~lL~~ldg~~~-----~---------~~~~~ivI~TTN~~~~Ld~AllRp  324 (431)
                      ++...+.. ....        +.........|+..++....     .         ....+++|+|||.++.++++|.+ 
T Consensus        79 ~l~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~-  157 (324)
T 1hqc_A           79 DLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLS-  157 (324)
T ss_dssp             HHHHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTT-
T ss_pred             HHHHHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHh-
Confidence            77776655 1111        22233455667776654210     0         01247899999999999999998 


Q ss_pred             CceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhccCCCCHHHHHHHh
Q 035603          325 GRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       325 GRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~~~~~s~adI~~~l  378 (431)
                       ||+..+.++.|+.+++..+++.+........ .+.+..++...+-.|.++.+++
T Consensus       158 -R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l  211 (324)
T 1hqc_A          158 -RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLF  211 (324)
T ss_dssp             -TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHH
T ss_pred             -cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHH
Confidence             9999999999999999999998875432222 2334455544444677776654

>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=99.63  E-value=4.2e-15  Score=146.08  Aligned_cols=149  Identities=19%  Similarity=0.165  Sum_probs=114.6

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ..|.  ..-.|.+|++++|.+++++.|.+.+.            ....+..+|++||||||||++++++|++++.+++.+
T Consensus        14 ~~~~--~k~rP~~~~~ivg~~~~~~~l~~~l~------------~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i   79 (324)
T 3u61_B           14 HILE--QKYRPSTIDECILPAFDKETFKSITS------------KGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFV   79 (324)
T ss_dssp             SSHH--HHSCCCSTTTSCCCHHHHHHHHHHHH------------TTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEE
T ss_pred             chHH--HhhCCCCHHHHhCcHHHHHHHHHHHH------------cCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEE
Confidence            3565  45678999999999999888776554            123456789999999999999999999999999999


Q ss_pred             cccCcCChHHHHHHHHHhhhc---------------ccch-hhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhh
Q 035603          259 ELTSVENNNELRSLLVDISSK---------------KKKS-NVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALI  322 (431)
Q Consensus       259 ~~~~~~~~~~l~~l~~~~~~~---------------~~~~-~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~All  322 (431)
                      +++... .+.++..+......               +... ......|+..++...    ..+.+|+|||.+..++++|.
T Consensus        80 ~~~~~~-~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~----~~~~iI~~~n~~~~l~~~l~  154 (324)
T 3u61_B           80 NGSDCK-IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYS----SNCSIIITANNIDGIIKPLQ  154 (324)
T ss_dssp             ETTTCC-HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHG----GGCEEEEEESSGGGSCTTHH
T ss_pred             cccccC-HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCC----CCcEEEEEeCCccccCHHHH
Confidence            988754 55666655443221               2233 556677888877542    34789999999999999999


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      +  |+. .++|+.|+.+++..+++.++
T Consensus       155 s--R~~-~i~~~~~~~~e~~~il~~~~  178 (324)
T 3u61_B          155 S--RCR-VITFGQPTDEDKIEMMKQMI  178 (324)
T ss_dssp             H--HSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             h--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence            9  775 69999999999887776654

>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=99.59  E-value=8.7e-15  Score=142.01  Aligned_cols=155  Identities=15%  Similarity=0.187  Sum_probs=108.5

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHh-CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC------
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKI-GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN------  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~-g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~------  265 (431)
                      +.|+|.+++++.|...+............. +...+.++||+||||||||++|+++|+.++.+++.++++.+..      
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            358999999999988776643321110000 1124578999999999999999999999999999998876532      


Q ss_pred             --hHHHHHHHHHhh--------hc----ccch---------------hhHHHHHHHHhcCccc------CCCCceEEEEe
Q 035603          266 --NNELRSLLVDIS--------SK----KKKS---------------NVTLSGLLNCIGGLWS------TCGGERIIVFT  310 (431)
Q Consensus       266 --~~~l~~l~~~~~--------~~----~~~~---------------~~~~s~lL~~ldg~~~------~~~~~~ivI~T  310 (431)
                        ...+..++....        ..    ++..               ....+.|+..+++...      .....+++|+|
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~  174 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIAS  174 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEE
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEc
Confidence              234566554321        11    1110               1126778888886421      01234788888


Q ss_pred             ----cCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          311 ----TNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       311 ----TN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                          ++.+..++|+|++  ||+..|+|++|+.+++..|++...
T Consensus       175 ~~~~~~~~~~l~~~l~~--R~~~~i~~~~~~~~~~~~il~~~~  215 (310)
T 1ofh_A          175 GAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPH  215 (310)
T ss_dssp             ECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             CCcccCCcccCCHHHHh--hCCceEEcCCcCHHHHHHHHHhhH
Confidence                5688899999998  999999999999999999998643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.57  E-value=3.1e-14  Score=142.04  Aligned_cols=176  Identities=16%  Similarity=0.088  Sum_probs=115.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCcC---
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSVE---  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~~---  264 (431)
                      .+|++++|.+..++.+........        .|...++++||+||||||||++|+++|+.++.  +++.+++..+.   
T Consensus        41 ~~~~~ivG~~~~~~~l~~l~~~~~--------~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~  112 (368)
T 3uk6_A           41 QASQGMVGQLAARRAAGVVLEMIR--------EGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLE  112 (368)
T ss_dssp             SEETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCSS
T ss_pred             cchhhccChHHHHHHHHHHHHHHH--------cCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhcc
Confidence            449999999999888654333222        24455689999999999999999999999985  56666543310   


Q ss_pred             -----------------------------------------------C-----hHHHHHHHHHhhhc-------------
Q 035603          265 -----------------------------------------------N-----NNELRSLLVDISSK-------------  279 (431)
Q Consensus       265 -----------------------------------------------~-----~~~l~~l~~~~~~~-------------  279 (431)
                                                                     .     ...++..+......             
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~v  192 (368)
T 3uk6_A          113 MSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGV  192 (368)
T ss_dssp             SCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCE
T ss_pred             cchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCce
Confidence                                                           0     22344444332210             


Q ss_pred             ------ccchhhHHHHHHHHhcCcccCCCCceEEEEec-----------CCCCCCChhhhccCceeEEEEcCCCCHHHHH
Q 035603          280 ------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT-----------NHVDKLDPALIRRGRMDKHIEMPYCCFEAFK  342 (431)
Q Consensus       280 ------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT-----------N~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~  342 (431)
                            +.......+.|+..++..    ...+++++|.           |.++.+|++|++  ||.. |+|++|+.+++.
T Consensus       193 l~IDEi~~l~~~~~~~L~~~le~~----~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~~~-i~~~~~~~~e~~  265 (368)
T 3uk6_A          193 LFIDEVHMLDIESFSFLNRALESD----MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RLLI-VSTTPYSEKDTK  265 (368)
T ss_dssp             EEEESGGGSBHHHHHHHHHHTTCT----TCCEEEEEESCSEEECBTSSCEEETTCCHHHHT--TEEE-EEECCCCHHHHH
T ss_pred             EEEhhccccChHHHHHHHHHhhCc----CCCeeeeecccceeeeeccCCCCcccCCHHHHh--hccE-EEecCCCHHHHH
Confidence                  222345566777777643    2235544443           358899999999  8976 899999999999


Q ss_pred             HHHHHhhchhcchh-HHHHHhHhccCC-CCHHHHHHHhcc
Q 035603          343 VLAKNYLEIESHEL-FHEIGSLLGETD-ITPADVAENLMP  380 (431)
Q Consensus       343 ~i~~~~l~~~~~~~-~~~i~~l~~~~~-~s~adI~~~l~~  380 (431)
                      .+++..+....... .+.+..++.... -+++++.+++..
T Consensus       266 ~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~  305 (368)
T 3uk6_A          266 QILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITA  305 (368)
T ss_dssp             HHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            99998876533322 223444444333 677777666543

>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=99.57  E-value=1e-13  Score=126.64  Aligned_cols=146  Identities=16%  Similarity=0.156  Sum_probs=106.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~  259 (431)
                      ....|.+|++++|.++.++.|.+.+.    .       +  ...++||+||||||||++++++++.+     ...++.++
T Consensus         9 ~~~~p~~~~~~~g~~~~~~~l~~~l~----~-------~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~   75 (226)
T 2chg_A            9 EKYRPRTLDEVVGQDEVIQRLKGYVE----R-------K--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (226)
T ss_dssp             HHTSCSSGGGCCSCHHHHHHHHHHHH----T-------T--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE
T ss_pred             HhcCCCCHHHHcCcHHHHHHHHHHHh----C-------C--CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEec
Confidence            34578899999999988887766543    1       1  12359999999999999999999986     45577788


Q ss_pred             ccCcCChHHHHHHHHHhhh-------c---------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhc
Q 035603          260 LTSVENNNELRSLLVDISS-------K---------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIR  323 (431)
Q Consensus       260 ~~~~~~~~~l~~l~~~~~~-------~---------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllR  323 (431)
                      +....+...+...+.....       .         +.........|+..++..    ...+.+|+|||.++.+++++.+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~----~~~~~~i~~~~~~~~~~~~l~~  151 (226)
T 2chg_A           76 ASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMY----SKSCRFILSCNYVSRIIEPIQS  151 (226)
T ss_dssp             TTCTTCHHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHT----TTTEEEEEEESCGGGSCHHHHT
T ss_pred             cccccChHHHHHHHHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhc----CCCCeEEEEeCChhhcCHHHHH
Confidence            7766555555554433221       1         222234556677776643    3347889999999999999999


Q ss_pred             cCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          324 RGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       324 pGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                        |+. .++++.|+.++...++..++.
T Consensus       152 --r~~-~i~~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A          152 --RCA-VFRFKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             --TSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             --hCc-eeecCCCCHHHHHHHHHHHHH
Confidence              887 899999999999998887764

>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=99.55  E-value=6e-14  Score=134.59  Aligned_cols=149  Identities=17%  Similarity=0.186  Sum_probs=99.4

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---C----
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---N----  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---~----  265 (431)
                      +.+++.++..+.+......+.   ..+...+...++++||+||||||||++|+++|+.++.+++.+++++..   .    
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~---~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~  109 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK  109 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHH---HHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHH---HHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHH
Confidence            345666666566555422221   223344566778999999999999999999999999999998776421   1    


Q ss_pred             hHHHHHHHHHhhhc-------cc-------------chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCCh-hhhcc
Q 035603          266 NNELRSLLVDISSK-------KK-------------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDP-ALIRR  324 (431)
Q Consensus       266 ~~~l~~l~~~~~~~-------~~-------------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~-AllRp  324 (431)
                      ...++.+|..+...       ++             .....+..|+..+++... .+..++||+|||.++.||+ ++.+ 
T Consensus       110 ~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~-~~~~~~ii~ttn~~~~l~~~~l~~-  187 (272)
T 1d2n_A          110 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEMEMLN-  187 (272)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHHTTCTT-
T ss_pred             HHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccC-CCCCEEEEEecCChhhcchhhhhc-
Confidence            13456666654422       11             133445666666676532 3456889999999999988 4555 


Q ss_pred             CceeEEEEcCCCCH-HHHHHHHHH
Q 035603          325 GRMDKHIEMPYCCF-EAFKVLAKN  347 (431)
Q Consensus       325 GRfd~~I~~~~p~~-~~r~~i~~~  347 (431)
                       ||+..|++|.++. ++...++..
T Consensus       188 -rf~~~i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          188 -AFSTTIHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             -TSSEEEECCCEEEHHHHHHHHHH
T ss_pred             -ccceEEcCCCccHHHHHHHHHHh
Confidence             9999999987765 555555443

>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=99.54  E-value=5.5e-14  Score=148.32  Aligned_cols=148  Identities=20%  Similarity=0.163  Sum_probs=102.0

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHH---
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNE---  268 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~---  268 (431)
                      .++++|.+++++.+.+.+.......      .. .+..+||+||||||||+++++||+.++.++..+++..+.....   
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~------~~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g  152 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTK------SL-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRG  152 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSS------SC-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcc------cC-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhh
Confidence            4568999999998876554322221      11 3557999999999999999999999999999998877533221   


Q ss_pred             ------------HHHHHHHhhhc---------cc----chhhHHHHHHHHhcCcccC-----------CCCceEEEEecC
Q 035603          269 ------------LRSLLVDISSK---------KK----KSNVTLSGLLNCIGGLWST-----------CGGERIIVFTTN  312 (431)
Q Consensus       269 ------------l~~l~~~~~~~---------~~----~~~~~~s~lL~~ldg~~~~-----------~~~~~ivI~TTN  312 (431)
                                  +...|..+...         +.    ......+.||..||.....           .-..++||+|||
T Consensus       153 ~~~~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN  232 (543)
T 3m6a_A          153 HRRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATAN  232 (543)
T ss_dssp             -----------CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECS
T ss_pred             HHHHHhccCchHHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccC
Confidence                        22233332211         11    1122457788888754211           014589999999


Q ss_pred             CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          313 HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       313 ~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      .++.|||+|++  ||+ .|+++.|+.+++..|++.++
T Consensus       233 ~~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          233 NLATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             STTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTH
T ss_pred             ccccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHH
Confidence            99999999999  996 69999999999999999987

>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=99.54  E-value=1.2e-13  Score=127.44  Aligned_cols=175  Identities=18%  Similarity=0.212  Sum_probs=116.0

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC----------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD----------  254 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~----------  254 (431)
                      ....|.+|++++|.++.++.|.+.+..           | ..++.++|+||||||||++++++++.++..          
T Consensus        15 ~~~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~   82 (250)
T 1njg_A           15 RKWRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGV   82 (250)
T ss_dssp             HHTCCCSGGGCCSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSC
T ss_pred             hccCCccHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcc
Confidence            345688899999999988887765532           1 123589999999999999999999987542          


Q ss_pred             --------------eEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceE
Q 035603          255 --------------VYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       255 --------------i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                                    ++.++.........+..++......              +.........|+..++..    ...+.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~----~~~~~  158 (250)
T 1njg_A           83 CDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP----PEHVK  158 (250)
T ss_dssp             SHHHHHHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSC----CTTEE
T ss_pred             cHHHHHHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcC----CCceE
Confidence                          2333333222334456665543211              222345677788888743    34588


Q ss_pred             EEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh-HHHHHhHhccCCCCHHHHHHHh
Q 035603          307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL-FHEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       307 vI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~-~~~i~~l~~~~~~s~adI~~~l  378 (431)
                      +|++||.++.+++++.+  |+ ..|+++.++.++...++..++....... .+.+..++..++=.|.++..++
T Consensus       159 ~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~  228 (250)
T 1njg_A          159 FLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLT  228 (250)
T ss_dssp             EEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             EEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999999999998  64 6899999999999999988875432211 1223333333333555555443

>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=99.48  E-value=1.6e-13  Score=133.48  Aligned_cols=146  Identities=16%  Similarity=0.171  Sum_probs=103.7

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~  259 (431)
                      ....|.+|++++|.++.++.|.+.+.    .       |..  ..+||+||||||||++++++|+.+     +.+++.++
T Consensus         9 ~k~~p~~~~~~~g~~~~~~~l~~~l~----~-------~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   75 (319)
T 2chq_A            9 EKYRPRTLDEVVGQDEVIQRLKGYVE----R-------KNI--PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (319)
T ss_dssp             TTTSCSSGGGSCSCHHHHHHHHTTTT----T-------TCC--CCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE
T ss_pred             HhcCCCCHHHHhCCHHHHHHHHHHHh----C-------CCC--CeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe
Confidence            44578999999999998887765442    1       211  249999999999999999999987     34577888


Q ss_pred             ccCcCChHHHHHHHHHhh-------hc---------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhc
Q 035603          260 LTSVENNNELRSLLVDIS-------SK---------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIR  323 (431)
Q Consensus       260 ~~~~~~~~~l~~l~~~~~-------~~---------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllR  323 (431)
                      +++..+.+.++..+....       ..         +.......+.|+..++.    ....+++|++||.++.+++++.+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~----~~~~~~~i~~~~~~~~l~~~l~s  151 (319)
T 2chq_A           76 ASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEM----YSKSCRFILSCNYVSRIIEPIQS  151 (319)
T ss_dssp             TTSTTCTTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSS----SSSSEEEEEEESCGGGSCHHHHT
T ss_pred             CccccChHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHh----cCCCCeEEEEeCChhhcchHHHh
Confidence            776543333333332221       11         12223344556666654    33458899999999999999999


Q ss_pred             cCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          324 RGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       324 pGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                        |+. .+++++|+.++...++...+.
T Consensus       152 --r~~-~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          152 --RCA-VFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             --TCE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             --hCe-EEEecCCCHHHHHHHHHHHHH
Confidence              665 899999999999998887764

>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=99.48  E-value=9e-14  Score=139.14  Aligned_cols=154  Identities=18%  Similarity=0.202  Sum_probs=102.6

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHH-HHhCC-CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCC------
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYY-AKIGK-AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVEN------  265 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~-~~~g~-~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~------  265 (431)
                      .|+|.+.+++.|...+.......... ...+. ..++++||+||||||||++|++||+.++.+++.++++.+..      
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            36899999999988876544321100 00111 24679999999999999999999999999999999877642      


Q ss_pred             --hHHHHHHHHHhhh-------c----------ccc-----------hhhHHHHHHHHhcCcccC---------------
Q 035603          266 --NNELRSLLVDISS-------K----------KKK-----------SNVTLSGLLNCIGGLWST---------------  300 (431)
Q Consensus       266 --~~~l~~l~~~~~~-------~----------~~~-----------~~~~~s~lL~~ldg~~~~---------------  300 (431)
                        ...+..++.....       .          ...           .....+.||..|||....               
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~  175 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL  175 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CC
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceE
Confidence              2234455443311       1          000           012788999999964210               


Q ss_pred             --CCCceEEEEecCCC----------CC-----------------------------------CChhhhccCceeEEEEc
Q 035603          301 --CGGERIIVFTTNHV----------DK-----------------------------------LDPALIRRGRMDKHIEM  333 (431)
Q Consensus       301 --~~~~~ivI~TTN~~----------~~-----------------------------------Ld~AllRpGRfd~~I~~  333 (431)
                        ...++++|+|+|..          ..                                   ++|+|+.  |||..+.+
T Consensus       176 ~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~~~  253 (363)
T 3hws_A          176 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVATL  253 (363)
T ss_dssp             CCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEEEC
T ss_pred             EEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeeeec
Confidence              11123444444432          11                                   7889988  99999999


Q ss_pred             CCCCHHHHHHHHHHhh
Q 035603          334 PYCCFEAFKVLAKNYL  349 (431)
Q Consensus       334 ~~p~~~~r~~i~~~~l  349 (431)
                      ++|+.+.+..|+...+
T Consensus       254 ~pl~~~~~~~I~~~~~  269 (363)
T 3hws_A          254 NELSEEALIQILKEPK  269 (363)
T ss_dssp             CCCCHHHHHHHHHSST
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999999988743

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.48  E-value=4e-13  Score=132.40  Aligned_cols=144  Identities=16%  Similarity=0.176  Sum_probs=100.2

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELR  270 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~  270 (431)
                      .+++++|.+++++.+...+..               ++++||+||||||||++|+++|+.++.+++.++++......++.
T Consensus        25 ~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~   89 (331)
T 2r44_A           25 VGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLI   89 (331)
T ss_dssp             HTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHH
T ss_pred             hccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcC
Confidence            356788998888777654431               25899999999999999999999999999988875322222221


Q ss_pred             HHH--HHhhh-----------c-------ccchhhHHHHHHHHhcCc-------ccCCCCceEEEEecCCCC-----CCC
Q 035603          271 SLL--VDISS-----------K-------KKKSNVTLSGLLNCIGGL-------WSTCGGERIIVFTTNHVD-----KLD  318 (431)
Q Consensus       271 ~l~--~~~~~-----------~-------~~~~~~~~s~lL~~ldg~-------~~~~~~~~ivI~TTN~~~-----~Ld  318 (431)
                      ...  .....           .       +.......+.|+..++..       .......++||+|+|..+     .|+
T Consensus        90 g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~~l~  169 (331)
T 2r44_A           90 GTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTYPLP  169 (331)
T ss_dssp             EEEEEETTTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCCCCC
T ss_pred             CceeecCCCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcccCC
Confidence            100  00000           0       223445667777776532       111233478888888554     399


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++|++  ||+.++++++|+.+++..|++.....
T Consensus       170 ~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          170 EAQVD--RFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             HHHHT--TSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             HHHHh--heeEEEEcCCCCHHHHHHHHHhcccc
Confidence            99999  99999999999999999999987653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.47  E-value=7e-13  Score=137.43  Aligned_cols=143  Identities=18%  Similarity=0.237  Sum_probs=99.4

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCe
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDV  255 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i  255 (431)
                      .-.|.+|+.|+|.++..+.+.+.+..             ..+.++||+||||||||++|+++|..+          +.++
T Consensus       173 ~~r~~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~  239 (468)
T 3pxg_A          173 IAKEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRV  239 (468)
T ss_dssp             HTTSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCE
T ss_pred             HHhcCCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeE
Confidence            34677899999999888877654421             234689999999999999999999996          7889


Q ss_pred             EEecccCcC---ChHHHHHHHHHhhhc-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC-----CCChh
Q 035603          256 YDLELTSVE---NNNELRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD-----KLDPA  320 (431)
Q Consensus       256 ~~l~~~~~~---~~~~l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~-----~Ld~A  320 (431)
                      +.++++...   ....++.+|......       + ......+.|+..|+      .+.+.+|++||.++     .+|++
T Consensus       240 ~~l~~~~~~~g~~e~~~~~~~~~~~~~~~~iLfiD-~~~~a~~~L~~~L~------~g~v~vI~at~~~e~~~~~~~~~a  312 (468)
T 3pxg_A          240 MTLDMGTKYRGEFEDRLKKVMDEIRQAGNIILFID-AAIDASNILKPSLA------RGELQCIGATTLDEYRKYIEKDAA  312 (468)
T ss_dssp             ECC----------CTTHHHHHHHHHTCCCCEEEEC-C--------CCCTT------SSSCEEEEECCTTTTHHHHTTCSH
T ss_pred             EEeeCCccccchHHHHHHHHHHHHHhcCCeEEEEe-CchhHHHHHHHhhc------CCCEEEEecCCHHHHHHHhhcCHH
Confidence            888876211   123466666655532       2 11122222333332      23589999999988     69999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |.|  ||.. |.|+.|+.+++..|++.+...
T Consensus       313 l~~--Rf~~-i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          313 LER--RFQP-IQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             HHH--SEEE-EECCCCCHHHHHHHHHHTTTT
T ss_pred             HHH--hCcc-ceeCCCCHHHHHHHHHHHHHH
Confidence            999  9985 999999999999999987653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.47  E-value=1.7e-13  Score=133.26  Aligned_cols=153  Identities=15%  Similarity=0.248  Sum_probs=107.0

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNEL  269 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l  269 (431)
                      ++++|.+.+++.|...+......-.   . ...+...+||+||||||||++|+++|+.+   +.+++.++++.+......
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~---~-~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   92 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLK---D-PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   92 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCS---C-TTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccH
Confidence            3567888888888887765432100   0 01122469999999999999999999998   456888888876543333


Q ss_pred             HHHH-------------------HHhhhc-------ccchhhHHHHHHHHhcCcccCCC-------CceEEEEecCC---
Q 035603          270 RSLL-------------------VDISSK-------KKKSNVTLSGLLNCIGGLWSTCG-------GERIIVFTTNH---  313 (431)
Q Consensus       270 ~~l~-------------------~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~-------~~~ivI~TTN~---  313 (431)
                      ..++                   ......       +.......+.|+..|+......+       .++++|+|||.   
T Consensus        93 ~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~  172 (311)
T 4fcw_A           93 SRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSP  172 (311)
T ss_dssp             HHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHH
T ss_pred             HHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHH
Confidence            3332                   111111       33345677888888865321111       25789999998   


Q ss_pred             -----------------------CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          314 -----------------------VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       314 -----------------------~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                                             ...++|+|++  ||+..+.+++|+.+++..|++.++..
T Consensus       173 ~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~~  231 (311)
T 4fcw_A          173 LILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMSY  231 (311)
T ss_dssp             HHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTHH
T ss_pred             HHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence                                   5578999998  99999999999999999999998853

>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=99.47  E-value=4.2e-13  Score=140.70  Aligned_cols=163  Identities=18%  Similarity=0.243  Sum_probs=108.2

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhC-HHHHHHhCC---CCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEG-KEYYAKIGK---AWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~-~~~~~~~g~---~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ..|.  ..-.|.+|++|+|.++.++.|.+.+..+... +..|...|.   +.++++||+||||||||++|+++|++++++
T Consensus        27 ~lW~--ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~  104 (516)
T 1sxj_A           27 KLWT--VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD  104 (516)
T ss_dssp             CCHH--HHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE
T ss_pred             CCcc--cccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            4675  5568899999999999999988887765432 122223333   356899999999999999999999999999


Q ss_pred             eEEecccCcCChHHHHHHHHHhh-------------------hc------------ccchhhHHHHHHHHhcCcccCCCC
Q 035603          255 VYDLELTSVENNNELRSLLVDIS-------------------SK------------KKKSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l~~~~~-------------------~~------------~~~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                      ++.+++++......+...+....                   ..            .......+..|++.++..    ..
T Consensus       105 ~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~----~~  180 (516)
T 1sxj_A          105 ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT----ST  180 (516)
T ss_dssp             EEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC----SS
T ss_pred             EEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc----CC
Confidence            99999988766544433322110                   11            111222345666666532    22


Q ss_pred             ceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          304 ERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      .+|+|+++.....++ .+.|   +...|.|+.|+.+++..++......
T Consensus       181 ~iIli~~~~~~~~l~-~l~~---r~~~i~f~~~~~~~~~~~L~~i~~~  224 (516)
T 1sxj_A          181 PLILICNERNLPKMR-PFDR---VCLDIQFRRPDANSIKSRLMTIAIR  224 (516)
T ss_dssp             CEEEEESCTTSSTTG-GGTT---TSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCccch-hhHh---ceEEEEeCCCCHHHHHHHHHHHHHH
Confidence            244444444434454 3444   4568999999999999888776543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.47  E-value=6.2e-13  Score=136.97  Aligned_cols=144  Identities=19%  Similarity=0.265  Sum_probs=103.0

Q ss_pred             eccCCCCccccccChhhH---HHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKK---EAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k---~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      ..-.|.+|++++|.+.++   +.|...+..           |.  ..++||+||||||||++|++||+.++.+++.++..
T Consensus        18 ~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~-----------~~--~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~   84 (447)
T 3pvs_A           18 ARMRPENLAQYIGQQHLLAAGKPLPRAIEA-----------GH--LHSMILWGPPGTGKTTLAEVIARYANADVERISAV   84 (447)
T ss_dssp             HHTCCCSTTTCCSCHHHHSTTSHHHHHHHH-----------TC--CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETT
T ss_pred             HHhCCCCHHHhCCcHHHHhchHHHHHHHHc-----------CC--CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEec
Confidence            345689999999999887   454443321           21  25899999999999999999999999999999876


Q ss_pred             CcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEec--CCCCCCChhhhccC
Q 035603          262 SVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT--NHVDKLDPALIRRG  325 (431)
Q Consensus       262 ~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT--N~~~~Ld~AllRpG  325 (431)
                      .. +...++.++..+...              +.........||..++.      +.+++|++|  |....++++|++  
T Consensus        85 ~~-~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~------~~v~lI~att~n~~~~l~~aL~s--  155 (447)
T 3pvs_A           85 TS-GVKEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED------GTITFIGATTENPSFELNSALLS--  155 (447)
T ss_dssp             TC-CHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT------TSCEEEEEESSCGGGSSCHHHHT--
T ss_pred             cC-CHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc------CceEEEecCCCCcccccCHHHhC--
Confidence            64 345677776654422              22333455667777774      225666655  555689999999  


Q ss_pred             ceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          326 RMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       326 Rfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |+. .+.++.|+.+++..+++.++..
T Consensus       156 R~~-v~~l~~l~~edi~~il~~~l~~  180 (447)
T 3pvs_A          156 RAR-VYLLKSLSTEDIEQVLTQAMED  180 (447)
T ss_dssp             TEE-EEECCCCCHHHHHHHHHHHHHC
T ss_pred             cee-EEeeCCcCHHHHHHHHHHHHHH
Confidence            776 6789999999999999888753

>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=99.46  E-value=7.7e-13  Score=129.02  Aligned_cols=149  Identities=17%  Similarity=0.191  Sum_probs=105.6

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----C
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----D  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----~  254 (431)
                      .|.  ....|.+|++++|.+++++.|.+.+..           |.  ..++||+||||||||++|+++|+.+..     .
T Consensus        14 ~~~--~k~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~   78 (327)
T 1iqp_A           14 PWV--EKYRPQRLDDIVGQEHIVKRLKHYVKT-----------GS--MPHLLFAGPPGVGKTTAALALARELFGENWRHN   78 (327)
T ss_dssp             CHH--HHTCCCSTTTCCSCHHHHHHHHHHHHH-----------TC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             chh--hccCCCCHHHhhCCHHHHHHHHHHHHc-----------CC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCc
Confidence            565  456789999999999998887765432           21  125999999999999999999998642     4


Q ss_pred             eEEecccCcCChHHHHHHHHHhh-------h-c--------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          255 VYDLELTSVENNNELRSLLVDIS-------S-K--------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l~~~~~-------~-~--------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                      ++.+++++..+.+.++..+....       . .        +.......+.|+..++..    ...+.+|+|||.++.++
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~----~~~~~~i~~~~~~~~l~  154 (327)
T 1iqp_A           79 FLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF----SSNVRFILSCNYSSKII  154 (327)
T ss_dssp             EEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT----TTTEEEEEEESCGGGSC
T ss_pred             eEEeeccccCchHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhc----CCCCeEEEEeCCccccC
Confidence            67777665422222333222211       1 1        222345567788777743    34478889999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +++.+  |+. .+.+++++.++...++...+.
T Consensus       155 ~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          155 EPIQS--RCA-IFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             HHHHH--TEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHh--hCc-EEEecCCCHHHHHHHHHHHHH
Confidence            99998  776 799999999999988887764

>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=99.46  E-value=2.2e-12  Score=128.46  Aligned_cols=148  Identities=20%  Similarity=0.267  Sum_probs=107.7

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----------  253 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----------  253 (431)
                      ....|.+|++++|.++.++.|.+.+..           | ..+..+||+||||||||++++++|+.+++           
T Consensus         8 ~k~rp~~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~   75 (373)
T 1jr3_A            8 RKWRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGV   75 (373)
T ss_dssp             HHTCCCSTTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSS
T ss_pred             HhhCCCchhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcc
Confidence            345788999999999998887765531           1 23457999999999999999999998865           


Q ss_pred             -------------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceE
Q 035603          254 -------------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERI  306 (431)
Q Consensus       254 -------------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~i  306 (431)
                                   +++.++.......+.++.++......              +.-.....+.|+..++..    ...++
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~----~~~~~  151 (373)
T 1jr3_A           76 CDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP----PEHVK  151 (373)
T ss_dssp             SHHHHHHHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSC----CSSEE
T ss_pred             cHHHHHHhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcC----CCceE
Confidence                         23444443322233466666554321              222345677888888753    34588


Q ss_pred             EEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          307 IVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       307 vI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +|++||.+..+++++.+  |+ ..++++.|+.++...+++.++..
T Consensus       152 ~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~~  193 (373)
T 1jr3_A          152 FLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNE  193 (373)
T ss_dssp             EEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHH
T ss_pred             EEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999998  55 68999999999999999887753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.44  E-value=1.5e-13  Score=122.56  Aligned_cols=136  Identities=19%  Similarity=0.245  Sum_probs=93.3

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|.+|++++|.++..+.+.+.+..             ..++++||+||||||||++++++|+.+          +.+++.
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~   83 (195)
T 1jbk_A           17 EQGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA   83 (195)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEE
T ss_pred             hhccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEE
Confidence            477899999998877777654321             335789999999999999999999986          678888


Q ss_pred             ecccCcC----C----hHHHHHHHHHhhhc--------ccch-----------hhHHHHHHHHhcCcccCCCCceEEEEe
Q 035603          258 LELTSVE----N----NNELRSLLVDISSK--------KKKS-----------NVTLSGLLNCIGGLWSTCGGERIIVFT  310 (431)
Q Consensus       258 l~~~~~~----~----~~~l~~l~~~~~~~--------~~~~-----------~~~~s~lL~~ldg~~~~~~~~~ivI~T  310 (431)
                      +++..+.    .    ...+..++......        ++..           ......|...++      ..++.+|+|
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~------~~~~~~i~~  157 (195)
T 1jbk_A           84 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA------RGELHCVGA  157 (195)
T ss_dssp             ECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH------TTSCCEEEE
T ss_pred             eeHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc------cCCeEEEEe
Confidence            8765542    1    12344454433221        1111           111223333332      124778888


Q ss_pred             cCCCC-----CCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          311 TNHVD-----KLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       311 TN~~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                      ||.++     .+|+++.+  ||+ .|+++.|+.+++.+++
T Consensus       158 ~~~~~~~~~~~~~~~l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          158 TTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             ECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             CCHHHHHHHHhcCHHHHH--Hhc-eeecCCCCHHHHHHHh
Confidence            88876     79999999  998 6999999999988764

>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=99.43  E-value=1.6e-12  Score=126.60  Aligned_cols=149  Identities=13%  Similarity=0.185  Sum_probs=108.1

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCC
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYD  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~  254 (431)
                      .|.  ....|.+|++++|.++.++.|.+.+.    .       |. .+. +||+||||||||++++++|+.+     +.+
T Consensus        10 ~~~--~~~~p~~~~~~~g~~~~~~~l~~~l~----~-------~~-~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~   74 (323)
T 1sxj_B           10 PWV--EKYRPQVLSDIVGNKETIDRLQQIAK----D-------GN-MPH-MIISGMPGIGKTTSVHCLAHELLGRSYADG   74 (323)
T ss_dssp             CHH--HHTCCSSGGGCCSCTHHHHHHHHHHH----S-------CC-CCC-EEEECSTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             cHH--HhcCCCCHHHHHCCHHHHHHHHHHHH----c-------CC-CCe-EEEECcCCCCHHHHHHHHHHHhcCCcccCC
Confidence            454  44578899999999999888766542    1       22 233 9999999999999999999986     345


Q ss_pred             eEEecccCcCChHHHHHHHHHhh--------h-c--------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          255 VYDLELTSVENNNELRSLLVDIS--------S-K--------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l~~~~~--------~-~--------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                      ++.++.++..+.+.+++++....        . .        +.........|+..++..    .....+|++||.++.+
T Consensus        75 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~----~~~~~~il~~~~~~~l  150 (323)
T 1sxj_B           75 VLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY----SNSTRFAFACNQSNKI  150 (323)
T ss_dssp             EEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT----TTTEEEEEEESCGGGS
T ss_pred             EEEecCccccChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhcc----CCCceEEEEeCChhhc
Confidence            77788776545566666655432        1 1        112234455666666642    3447888899999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++++.+  |+. .++++.|+.++...++...+.
T Consensus       151 ~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          151 IEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIK  180 (323)
T ss_dssp             CHHHHT--TSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             hhHHHh--hce-EEeecCCCHHHHHHHHHHHHH
Confidence            999998  554 899999999999999887654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.43  E-value=2e-12  Score=141.49  Aligned_cols=143  Identities=19%  Similarity=0.250  Sum_probs=100.2

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCe
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDV  255 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i  255 (431)
                      ...|..|+.|+|.++.++.+.+.+.             ...+.++||+||||||||++|+++|+.+          +..+
T Consensus       173 ~~~~~~ld~iiG~~~~i~~l~~~l~-------------~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~  239 (758)
T 3pxi_A          173 IAKEDSLDPVIGRSKEIQRVIEVLS-------------RRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRV  239 (758)
T ss_dssp             HTTSSCSCCCCCCHHHHHHHHHHHH-------------CSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCE
T ss_pred             HHhhCCCCCccCchHHHHHHHHHHh-------------CCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeE
Confidence            3456789999999998888766442             1345689999999999999999999997          8888


Q ss_pred             EEecccCc---CChHHHHHHHHHhhhc-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCC-----CCChh
Q 035603          256 YDLELTSV---ENNNELRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD-----KLDPA  320 (431)
Q Consensus       256 ~~l~~~~~---~~~~~l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~-----~Ld~A  320 (431)
                      +.+++..-   .....++.+|..+...       + ......+.|+..++      .+.+.+|+|||..+     .+||+
T Consensus       240 ~~~~~g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD-~~~~~~~~L~~~l~------~~~v~~I~at~~~~~~~~~~~d~a  312 (758)
T 3pxi_A          240 MTLDMGTKYRGEFEDRLKKVMDEIRQAGNIILFID-AAIDASNILKPSLA------RGELQCIGATTLDEYRKYIEKDAA  312 (758)
T ss_dssp             ECC----------CTTHHHHHHHHHTCCCCEEEEC-C--------CCCTT------SSSCEEEEECCTTTTHHHHTTCSH
T ss_pred             EEecccccccchHHHHHHHHHHHHHhcCCEEEEEc-CchhHHHHHHHHHh------cCCEEEEeCCChHHHHHHhhccHH
Confidence            88887221   1223567777666543       2 11122222333332      24589999999988     79999


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |.|  ||. .|.|+.|+.+++..|++.+...
T Consensus       313 l~r--Rf~-~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          313 LER--RFQ-PIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             HHH--SEE-EEECCCCCHHHHHHHHHHTTTT
T ss_pred             HHh--hCc-EEEeCCCCHHHHHHHHHHHHHH
Confidence            999  995 5999999999999999977653

>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=99.42  E-value=1.2e-12  Score=129.43  Aligned_cols=149  Identities=17%  Similarity=0.222  Sum_probs=106.0

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC------C
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN------Y  253 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~------~  253 (431)
                      .|.  ....|.+|++++|.+++++.|...+.    .       |.  ..++||+||||||||++++++|+.++      .
T Consensus        26 ~~~--~k~~p~~~~~i~g~~~~~~~l~~~l~----~-------~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~   90 (353)
T 1sxj_D           26 PWV--EKYRPKNLDEVTAQDHAVTVLKKTLK----S-------AN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKS   90 (353)
T ss_dssp             CHH--HHTCCSSTTTCCSCCTTHHHHHHHTT----C-------TT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT
T ss_pred             cHH--HhcCCCCHHHhhCCHHHHHHHHHHHh----c-------CC--CCEEEEECCCCCCHHHHHHHHHHHhCCCccccc
Confidence            465  44578999999999999887765432    1       11  13499999999999999999999865      3


Q ss_pred             CeEEecccCcCChHHHHHHHHHhhh-----------------c---------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          254 DVYDLELTSVENNNELRSLLVDISS-----------------K---------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       254 ~i~~l~~~~~~~~~~l~~l~~~~~~-----------------~---------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                      .++.+++++......+++.+.....                 .         +.......+.|+..++...    ....+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~----~~~~~  166 (353)
T 1sxj_D           91 RILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS----GVTRF  166 (353)
T ss_dssp             SEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT----TTEEE
T ss_pred             ceEEEccccccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcC----CCceE
Confidence            5788888775444444443322111                 0         1223345677888777542    33677


Q ss_pred             EEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |++||+++.+++++.+  |+. .+.+++|+.++...++...+.
T Consensus       167 il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~  206 (353)
T 1sxj_D          167 CLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISE  206 (353)
T ss_dssp             EEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHH
Confidence            7889999999999999  775 899999999998888877653

>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=99.40  E-value=3.9e-12  Score=125.60  Aligned_cols=147  Identities=20%  Similarity=0.164  Sum_probs=92.7

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------C----
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------D----  254 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------~----  254 (431)
                      ..+|.+|++++|.+++++.+...+    ..         +...++||+||||||||++|+++|+.++.       +    
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~----~~---------~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~   83 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTA----VD---------PGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSP   83 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHH----HC---------GGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCS
T ss_pred             CCCCCCchhccChHHHHHHHHHHh----hC---------CCCceEEEECCCCccHHHHHHHHHHhCcccccccccccccc
Confidence            346688999999988776542211    11         12347999999999999999999999873       1    


Q ss_pred             ----------------------eEEecccCcCChHHH------HHHHHHhh------------hc-------ccchhhHH
Q 035603          255 ----------------------VYDLELTSVENNNEL------RSLLVDIS------------SK-------KKKSNVTL  287 (431)
Q Consensus       255 ----------------------i~~l~~~~~~~~~~l------~~l~~~~~------------~~-------~~~~~~~~  287 (431)
                                            ++.+...  .+...+      ...+....            ..       +.......
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~  161 (350)
T 1g8p_A           84 NVEMIPDWATVLSTNVIRKPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIV  161 (350)
T ss_dssp             SGGGSCTTCCCSCCCEEEECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHH
T ss_pred             ccccccchhhhhccccccCCCcccccCCC--cchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHH
Confidence                                  1111110  011111      22222211            11       22334556


Q ss_pred             HHHHHHhcCc----ccC-----CCCceEEEEecCCCC-CCChhhhccCceeEEEEcCCC-CHHHHHHHHHHhh
Q 035603          288 SGLLNCIGGL----WST-----CGGERIIVFTTNHVD-KLDPALIRRGRMDKHIEMPYC-CFEAFKVLAKNYL  349 (431)
Q Consensus       288 s~lL~~ldg~----~~~-----~~~~~ivI~TTN~~~-~Ld~AllRpGRfd~~I~~~~p-~~~~r~~i~~~~l  349 (431)
                      +.|+..++.-    ...     ....+++|+|||..+ .++++|++  ||+.++++++| +.+.+..|++..+
T Consensus       162 ~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~~~il~~~~  232 (350)
T 1g8p_A          162 DLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIRRRD  232 (350)
T ss_dssp             HHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHHH
Confidence            6777766531    110     012578999999755 89999999  99999999999 5777778887743

>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=99.39  E-value=7.8e-12  Score=125.54  Aligned_cols=153  Identities=20%  Similarity=0.211  Sum_probs=101.5

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHH-----------------HhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYA-----------------KIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~-----------------~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .|+|.+++|+.|...+...........                 .-....+.++||+||||||||++|+++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            479999999999887754433221100                 011234568999999999999999999999999999


Q ss_pred             EecccCcCC--------hHHHHHHHHHhh-------hc-------ccchh--------------hHHHHHHHHhcCccc-
Q 035603          257 DLELTSVEN--------NNELRSLLVDIS-------SK-------KKKSN--------------VTLSGLLNCIGGLWS-  299 (431)
Q Consensus       257 ~l~~~~~~~--------~~~l~~l~~~~~-------~~-------~~~~~--------------~~~s~lL~~ldg~~~-  299 (431)
                      .+++..+..        ...+..++....       ..       +....              ...+.||..|++... 
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  181 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  181 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcccee
Confidence            999877531        223444443221       11       11111              167889999986420 


Q ss_pred             --C--------------CCCceEEEEecCC-----------------------------------------CCCCChhhh
Q 035603          300 --T--------------CGGERIIVFTTNH-----------------------------------------VDKLDPALI  322 (431)
Q Consensus       300 --~--------------~~~~~ivI~TTN~-----------------------------------------~~~Ld~All  322 (431)
                        .              ...++++|+|||.                                         ...+.|+|+
T Consensus       182 ~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~  261 (376)
T 1um8_A          182 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  261 (376)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHh
Confidence              0              0133677787772                                         113567777


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      .  |++..|.|+.++.++...++...
T Consensus       262 ~--R~~~~i~~~~l~~~~l~~i~~~~  285 (376)
T 1um8_A          262 G--RLPVLSTLDSISLEAMVDILQKP  285 (376)
T ss_dssp             T--TCCEEEECCCCCHHHHHHHHHSS
T ss_pred             c--CCCceeeccCCCHHHHHHHHhhh
Confidence            7  99999999999999998888753

>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=99.39  E-value=1.5e-11  Score=121.68  Aligned_cols=184  Identities=17%  Similarity=0.163  Sum_probs=116.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE  264 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~  264 (431)
                      ..-.|.+|++++|.+.+++.+...+..-.       ..|. .+..++|+||||||||+|+++||++++.++...+.....
T Consensus        17 ~~lr~~~l~~~~g~~~~~~~l~~~i~~~~-------~~~~-~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~   88 (334)
T 1in4_A           17 QFLRPKSLDEFIGQENVKKKLSLALEAAK-------MRGE-VLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV   88 (334)
T ss_dssp             CTTSCSSGGGCCSCHHHHHHHHHHHHHHH-------HHTC-CCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC
T ss_pred             HHcCCccHHHccCcHHHHHHHHHHHHHHH-------hcCC-CCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhc
Confidence            33468899999998877776654443221       1122 235799999999999999999999999988777666555


Q ss_pred             ChHHHHHHHHHhhhc--------ccchhhHHHHHHHHhcCcc------cCC--------CCceEEEEecCCCCCCChhhh
Q 035603          265 NNNELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLW------STC--------GGERIIVFTTNHVDKLDPALI  322 (431)
Q Consensus       265 ~~~~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~------~~~--------~~~~ivI~TTN~~~~Ld~All  322 (431)
                      ...++..++......        +.........|+..+....      ...        -..+.++++||++..|+++++
T Consensus        89 ~~~~l~~~~~~~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~  168 (334)
T 1in4_A           89 KQGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLR  168 (334)
T ss_dssp             SHHHHHHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHH
T ss_pred             CHHHHHHHHHHccCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHH
Confidence            555666655432221        1111223334444442211      000        013567789999999999999


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHhhchhcch-hHHHHHhHhccCCCCHHHHHHHh
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE-LFHEIGSLLGETDITPADVAENL  378 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~-~~~~i~~l~~~~~~s~adI~~~l  378 (431)
                      +  ||...+.+++++.+++..+++......... ..+.+..++....=++..+..+|
T Consensus       169 s--R~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll  223 (334)
T 1in4_A          169 S--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLT  223 (334)
T ss_dssp             T--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             H--hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHH
Confidence            9  999999999999999999998775432211 12234444444444555444333

>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=99.39  E-value=6.8e-12  Score=124.24  Aligned_cols=149  Identities=24%  Similarity=0.310  Sum_probs=104.7

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----  253 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----  253 (431)
                      ..|.  .--.|.+|++++|.+.+++.|...+.    .       |. .+ .+||+||||||||++++++|+.+..     
T Consensus        13 ~~~~--~k~rp~~~~~~~g~~~~~~~L~~~i~----~-------g~-~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~   77 (340)
T 1sxj_C           13 LPWV--EKYRPETLDEVYGQNEVITTVRKFVD----E-------GK-LP-HLLFYGPPGTGKTSTIVALAREIYGKNYSN   77 (340)
T ss_dssp             CCHH--HHTCCSSGGGCCSCHHHHHHHHHHHH----T-------TC-CC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHH
T ss_pred             CchH--HHhCCCcHHHhcCcHHHHHHHHHHHh----c-------CC-Cc-eEEEECCCCCCHHHHHHHHHHHHcCCCccc
Confidence            3565  44678999999999888777655442    1       22 12 3999999999999999999998743     


Q ss_pred             CeEEecccCcCChHHHHHHHHHhhhc----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          254 DVYDLELTSVENNNELRSLLVDISSK----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       254 ~i~~l~~~~~~~~~~l~~l~~~~~~~----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                      .+..++.++..+.+.+++.+......                +.-.....+.|+..++..    .....+|++||.+..+
T Consensus        78 ~~~~~~~~~~~~~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~----~~~~~~il~~n~~~~i  153 (340)
T 1sxj_C           78 MVLELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERY----TKNTRFCVLANYAHKL  153 (340)
T ss_dssp             HEEEECTTSCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT----TTTEEEEEEESCGGGS
T ss_pred             eEEEEcCcccccHHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcC----CCCeEEEEEecCcccc
Confidence            36667776644455565544332211                112234566777777643    2346788889999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      +|++.+  |+. .+.++.++.++....+...+
T Consensus       154 ~~~i~s--R~~-~~~~~~l~~~~~~~~l~~~~  182 (340)
T 1sxj_C          154 TPALLS--QCT-RFRFQPLPQEAIERRIANVL  182 (340)
T ss_dssp             CHHHHT--TSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             chhHHh--hce-eEeccCCCHHHHHHHHHHHH
Confidence            999999  665 78899988888887777655

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.38  E-value=2.4e-12  Score=140.93  Aligned_cols=171  Identities=15%  Similarity=0.180  Sum_probs=114.6

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCc-eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKR-GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVEN  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~r-g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  265 (431)
                      +.|+|.++.++.|.+.+.....        |..   .|. ++||+||||||||++|+++|..+   +.+++.++++.+..
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            4688999998888887765442        221   122 69999999999999999999997   67899999987642


Q ss_pred             h-----HHHHHHHHHhhhc-------ccchhhHHHHHHHHhcCcccC-------CCCceEEEEecCCCCC----------
Q 035603          266 N-----NELRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWST-------CGGERIIVFTTNHVDK----------  316 (431)
Q Consensus       266 ~-----~~l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~-------~~~~~ivI~TTN~~~~----------  316 (431)
                      .     ..+...+......       +.......+.||+.||.-.-.       ...+++||+|||.+..          
T Consensus       563 ~~~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~  642 (758)
T 3pxi_A          563 KHSTSGGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELK  642 (758)
T ss_dssp             SCCCC---CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHH
T ss_pred             ccccccchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHH
Confidence            2     2233333222221       344567788899988752211       1234799999997654          


Q ss_pred             --CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHHHH
Q 035603          317 --LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAEN  377 (431)
Q Consensus       317 --Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~~~  377 (431)
                        ++|+|+.  |||..|.|++|+.+++..|++.++...    ...+...-....++++-+..+
T Consensus       643 ~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l~~~----~~~~~~~~~~~~~~~~a~~~l  699 (758)
T 3pxi_A          643 RAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMSDQL----TKRLKEQDLSIELTDAAKAKV  699 (758)
T ss_dssp             HHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHHHHH----HHHHHTTTCEEEECHHHHHHH
T ss_pred             hhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHHHHH----HHHHHhCCCeEEECHHHHHHH
Confidence              7899988  999999999999999999999887532    122221111235676666544

>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=2.5e-12  Score=119.42  Aligned_cols=150  Identities=14%  Similarity=0.131  Sum_probs=91.6

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEeccc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELT  261 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~  261 (431)
                      .+.++.+|+++++.+. .+.+.+.+..+...         +.++++||+||||||||++++++|++++   .+++.+++.
T Consensus        20 ~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~---------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~   89 (242)
T 3bos_A           20 HLPDDETFTSYYPAAG-NDELIGALKSAASG---------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLG   89 (242)
T ss_dssp             CCCTTCSTTTSCC--C-CHHHHHHHHHHHHT---------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CCCCCCChhhccCCCC-CHHHHHHHHHHHhC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            4555689999998332 22333444444432         2357899999999999999999999875   677777776


Q ss_pred             CcCChHHHHHHHHHhhhc-----cc-----chhhHHHHHHHHhcCcccCCCCce-EEEEecCCCC---CCChhhhccCce
Q 035603          262 SVENNNELRSLLVDISSK-----KK-----KSNVTLSGLLNCIGGLWSTCGGER-IIVFTTNHVD---KLDPALIRRGRM  327 (431)
Q Consensus       262 ~~~~~~~l~~l~~~~~~~-----~~-----~~~~~~s~lL~~ldg~~~~~~~~~-ivI~TTN~~~---~Ld~AllRpGRf  327 (431)
                      .+...  +...+......     ++     ........|+..++......  .. +|+.|++.++   .+++++.+  |+
T Consensus        90 ~~~~~--~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~--~~~ii~~~~~~~~~~~~~~~~l~~--r~  163 (242)
T 3bos_A           90 IHASI--STALLEGLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQK--RGSLIVSASASPMEAGFVLPDLVS--RM  163 (242)
T ss_dssp             GGGGS--CGGGGTTGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHC--SCEEEEEESSCTTTTTCCCHHHHH--HH
T ss_pred             HHHHH--HHHHHHhccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcC--CCeEEEEcCCCHHHHHHhhhhhhh--Hh
Confidence            54211  11111111111     11     11112445666665443221  23 4444444443   56799998  77


Q ss_pred             e--EEEEcCCCCHHHHHHHHHHhhc
Q 035603          328 D--KHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       328 d--~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +  ..++++.|+.+++..++..++.
T Consensus       164 ~~~~~i~l~~~~~~~~~~~l~~~~~  188 (242)
T 3bos_A          164 HWGLTYQLQPMMDDEKLAALQRRAA  188 (242)
T ss_dssp             HHSEEEECCCCCGGGHHHHHHHHHH
T ss_pred             hcCceEEeCCCCHHHHHHHHHHHHH
Confidence            5  8999999999999999988774

>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=99.36  E-value=7.7e-12  Score=122.88  Aligned_cols=150  Identities=16%  Similarity=0.207  Sum_probs=96.7

Q ss_pred             ccCCCCccccc-cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          186 FEHPATFDTLA-MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       186 ~~~p~~f~~l~-g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.+..+|++++ |... ... ...+......+      + ..+.+++|+||||||||++++++|+++   +.+++.+++.
T Consensus         4 l~~~~~f~~fv~g~~~-~~a-~~~~~~~~~~~------~-~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~   74 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGN-RLA-YEVVKEALENL------G-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   74 (324)
T ss_dssp             CCTTCCSSSCCCCTTT-HHH-HHHHHHHHHTT------T-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCCCcccCCCCCcH-HHH-HHHHHHHHhCc------C-CCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH
Confidence            45567899987 4333 222 22343333332      1 235689999999999999999999998   8999999876


Q ss_pred             CcCChHHHHH--------HHHHhhh-c-----ccc---h--hhHHHHHHHHhcCcccCCCCceEEEEecCCCC---CCCh
Q 035603          262 SVENNNELRS--------LLVDISS-K-----KKK---S--NVTLSGLLNCIGGLWSTCGGERIIVFTTNHVD---KLDP  319 (431)
Q Consensus       262 ~~~~~~~l~~--------l~~~~~~-~-----~~~---~--~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~---~Ld~  319 (431)
                      .+.  ..+..        .|..... .     ++.   .  ......++..++.....  +.++|+.++|.+.   .+++
T Consensus        75 ~~~--~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~--~~~iii~~~~~~~~l~~l~~  150 (324)
T 1l8q_A           75 DFA--QAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLL--EKQIILASDRHPQKLDGVSD  150 (324)
T ss_dssp             HHH--HHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHT--TCEEEEEESSCGGGCTTSCH
T ss_pred             HHH--HHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccccCChHHHHHHHHHHHHHHHC--CCeEEEEecCChHHHHHhhh
Confidence            541  11111        1111111 1     111   1  13455566666554322  2367777777766   6899


Q ss_pred             hhhccCcee--EEEEcCCCCHHHHHHHHHHhhch
Q 035603          320 ALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       320 AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      +|.+  ||+  ..+++++ +.+++..+++.++..
T Consensus       151 ~L~s--R~~~~~~i~l~~-~~~e~~~il~~~~~~  181 (324)
T 1l8q_A          151 RLVS--RFEGGILVEIEL-DNKTRFKIIKEKLKE  181 (324)
T ss_dssp             HHHH--HHHTSEEEECCC-CHHHHHHHHHHHHHH
T ss_pred             Hhhh--cccCceEEEeCC-CHHHHHHHHHHHHHh
Confidence            9999  886  7899999 999999999988753

>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=99.36  E-value=7.6e-12  Score=136.89  Aligned_cols=147  Identities=17%  Similarity=0.247  Sum_probs=105.4

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCC----CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCCh---
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA----WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENN---  266 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~---  266 (431)
                      .|+|.++.++.|...+....        .|..    +...+||+||||||||++|+++|+.++.+++.++++.+...   
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~--------~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~  530 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMAR--------AGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTV  530 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHH--------TTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCC
T ss_pred             hccCHHHHHHHHHHHHHHHh--------cccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhH
Confidence            47788888877766554322        2332    12369999999999999999999999999999998875321   


Q ss_pred             ----------------HHHHHHHHHhhhc-------ccchhhHHHHHHHHhcCcccC--CC-----CceEEEEecCCCC-
Q 035603          267 ----------------NELRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWST--CG-----GERIIVFTTNHVD-  315 (431)
Q Consensus       267 ----------------~~l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~--~~-----~~~ivI~TTN~~~-  315 (431)
                                      ..+...+......       +......++.|+..||.-.-.  .+     .+++||+|||... 
T Consensus       531 ~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~  610 (758)
T 1r6b_X          531 SRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVR  610 (758)
T ss_dssp             SSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC
T ss_pred             hhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchh
Confidence                            1122333222222       334566788899988742111  11     3478999999754 


Q ss_pred             ------------------------CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          316 ------------------------KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       316 ------------------------~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                              .++|+|+.  |||..|.|++++.+++..|++.++.
T Consensus       611 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~~i~~~~l~  667 (758)
T 1r6b_X          611 ETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_dssp             -----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             hhhhcccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHHHHHHHHHH
Confidence                                    67899998  9999999999999999999999875

>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=99.33  E-value=1.7e-11  Score=121.36  Aligned_cols=175  Identities=12%  Similarity=0.131  Sum_probs=111.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----------
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----------  253 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----------  253 (431)
                      ..-+|.+|++++|.+++++.+.+.+.   .       .|. .+. +||+||||||||++++++|+++..           
T Consensus         6 ~kyrP~~~~~~vg~~~~~~~l~~~~~---~-------~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~   73 (354)
T 1sxj_E            6 DKYRPKSLNALSHNEELTNFLKSLSD---Q-------PRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVR   73 (354)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTT---C-------TTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------
T ss_pred             hccCCCCHHHhcCCHHHHHHHHHHHh---h-------CCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecce
Confidence            44579999999999988777654330   1       122 233 999999999999999999996421           


Q ss_pred             ------------------CeEEecccCcC--ChHHHHHHHHHhhh---------------c---------ccchhhHHHH
Q 035603          254 ------------------DVYDLELTSVE--NNNELRSLLVDISS---------------K---------KKKSNVTLSG  289 (431)
Q Consensus       254 ------------------~i~~l~~~~~~--~~~~l~~l~~~~~~---------------~---------~~~~~~~~s~  289 (431)
                                        +++.++.+...  ....+++.+.....               .         +.-+....+.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~  153 (354)
T 1sxj_E           74 QFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAA  153 (354)
T ss_dssp             ------------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHH
T ss_pred             eecccccccceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHH
Confidence                              12334333221  11134444433211               1         2233455677


Q ss_pred             HHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchh--HHHHHhHhccC
Q 035603          290 LLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHEL--FHEIGSLLGET  367 (431)
Q Consensus       290 lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~--~~~i~~l~~~~  367 (431)
                      |+..++..    ..+..+|++||.++.+++++.+  |+ ..+.|++|+.++...+++..........  .+.+..++...
T Consensus       154 L~~~le~~----~~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~  226 (354)
T 1sxj_E          154 LRRTMEKY----SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQAS  226 (354)
T ss_dssp             HHHHHHHS----TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHH
T ss_pred             HHHHHHhh----cCCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHc
Confidence            78877754    2347899999999999999998  66 7899999999999999988775433221  22344444444


Q ss_pred             CCCHHHHHHHh
Q 035603          368 DITPADVAENL  378 (431)
Q Consensus       368 ~~s~adI~~~l  378 (431)
                      +=++.++...+
T Consensus       227 ~G~~r~a~~~l  237 (354)
T 1sxj_E          227 NGNLRVSLLML  237 (354)
T ss_dssp             TTCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            45566665554

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.33  E-value=1.4e-11  Score=122.55  Aligned_cols=150  Identities=16%  Similarity=0.124  Sum_probs=100.6

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEe
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDL  258 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l  258 (431)
                      +...+++++|.++..+.|.+.+...+.         ...+++++|+||||||||++++++++.+         +..++.+
T Consensus        14 ~~~~p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i   84 (387)
T 2v1u_A           14 PDYVPDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYV   84 (387)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEE
T ss_pred             CccCCCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEE
Confidence            334458899998888887765543322         1345789999999999999999999988         7888888


Q ss_pred             cccCcCChH----------------------HH-HHHHHHhhhc--------ccc--------hhhHHHHHHHHhcCccc
Q 035603          259 ELTSVENNN----------------------EL-RSLLVDISSK--------KKK--------SNVTLSGLLNCIGGLWS  299 (431)
Q Consensus       259 ~~~~~~~~~----------------------~l-~~l~~~~~~~--------~~~--------~~~~~s~lL~~ldg~~~  299 (431)
                      ++....+..                      .+ ..++......        ++.        ....+..+++.++....
T Consensus        85 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~  164 (387)
T 2v1u_A           85 NARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGD  164 (387)
T ss_dssp             ETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC--
T ss_pred             ECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCC
Confidence            877643322                      21 1222111111        111        22344444554443310


Q ss_pred             CCCCceEEEEecCCC---CCCChhhhccCceeE-EEEcCCCCHHHHHHHHHHhhc
Q 035603          300 TCGGERIIVFTTNHV---DKLDPALIRRGRMDK-HIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       300 ~~~~~~ivI~TTN~~---~~Ld~AllRpGRfd~-~I~~~~p~~~~r~~i~~~~l~  350 (431)
                        +.++.+|+|||.+   +.+++++.+  ||.. .|++++++.++...+++..+.
T Consensus       165 --~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~  215 (387)
T 2v1u_A          165 --RVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAE  215 (387)
T ss_dssp             -----CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHH
T ss_pred             --CceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHH
Confidence              3458999999988   789999998  8864 899999999999999998875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.32  E-value=1.5e-12  Score=115.95  Aligned_cols=129  Identities=20%  Similarity=0.247  Sum_probs=86.7

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeE
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVY  256 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~  256 (431)
                      -.|.+|++++|.++..+.+.+.+.    .         ..++++||+||||||||++++++|+.+          +.+++
T Consensus        16 ~~~~~~~~~~g~~~~~~~l~~~l~----~---------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~   82 (187)
T 2p65_A           16 ARAGKLDPVIGRDTEIRRAIQILS----R---------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLV   82 (187)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHT----S---------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEE
T ss_pred             HhccccchhhcchHHHHHHHHHHh----C---------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEE
Confidence            347789999999887776655432    1         235689999999999999999999987          77788


Q ss_pred             EecccCcC----C----hHHHHHHHHHhhhc--------ccc------------hhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          257 DLELTSVE----N----NNELRSLLVDISSK--------KKK------------SNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       257 ~l~~~~~~----~----~~~l~~l~~~~~~~--------~~~------------~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                      .+++..+.    .    ...+..++......        ++.            .......|+..++.      ..+++|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~------~~~~ii  156 (187)
T 2p65_A           83 SLDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR------GELRCI  156 (187)
T ss_dssp             EECHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT------TCSCEE
T ss_pred             EEeHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc------CCeeEE
Confidence            87765431    1    11244444333221        110            02233334444432      347899


Q ss_pred             EecCCCC-----CCChhhhccCceeEEEEcCCCC
Q 035603          309 FTTNHVD-----KLDPALIRRGRMDKHIEMPYCC  337 (431)
Q Consensus       309 ~TTN~~~-----~Ld~AllRpGRfd~~I~~~~p~  337 (431)
                      +|||.++     .+|+++.+  ||+. |+++.|+
T Consensus       157 ~~~~~~~~~~~~~~~~~l~~--R~~~-i~i~~p~  187 (187)
T 2p65_A          157 GATTVSEYRQFIEKDKALER--RFQQ-ILVEQPS  187 (187)
T ss_dssp             EEECHHHHHHHTTTCHHHHH--HEEE-EECCSCC
T ss_pred             EecCHHHHHHHHhccHHHHH--hcCc-ccCCCCC
Confidence            9999775     68999999  9995 9999986

>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=99.31  E-value=4.4e-11  Score=119.43  Aligned_cols=143  Identities=13%  Similarity=0.176  Sum_probs=98.8

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----------CCCeEEeccc
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----------NYDVYDLELT  261 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----------~~~i~~l~~~  261 (431)
                      ++++|.++..+.|.+.+......         ..+++++|+||||||||++++++++++           +..++.+++.
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            78999999999988877665543         235689999999999999999999988           8899999876


Q ss_pred             CcC-ChHHH-HH-----------------------HHHHhhhc------ccchhhHH---HHH-HHHhcCcccCCCCceE
Q 035603          262 SVE-NNNEL-RS-----------------------LLVDISSK------KKKSNVTL---SGL-LNCIGGLWSTCGGERI  306 (431)
Q Consensus       262 ~~~-~~~~l-~~-----------------------l~~~~~~~------~~~~~~~~---s~l-L~~ldg~~~~~~~~~i  306 (431)
                      ... +...+ ..                       ++......      ++......   ..+ +..+-...    .++.
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~  166 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANIS  166 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEE
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceE
Confidence            543 22211 11                       11111111      11111110   111 22222221    3488


Q ss_pred             EEEecCCC---CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          307 IVFTTNHV---DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       307 vI~TTN~~---~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +|+|||.+   +.+++++.+  ||...|+|++++.++...+++.++.
T Consensus       167 iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          167 VIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             EEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             EEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHH
Confidence            99999987   789999999  8877999999999999999998764

>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=99.28  E-value=1.3e-10  Score=115.04  Aligned_cols=117  Identities=15%  Similarity=0.165  Sum_probs=88.0

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEeccc---CcCChHHHHHHHHHhhh
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELT---SVENNNELRSLLVDISS  278 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~---~~~~~~~l~~l~~~~~~  278 (431)
                      .+.+||||||||||||++|+++|+.+.+                        +++.++..   .-.+.+.+++++.....
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~  102 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNE  102 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTS
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhh
Confidence            4568999999999999999999998764                        34555553   22244567777665432


Q ss_pred             c--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHH
Q 035603          279 K--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL  344 (431)
Q Consensus       279 ~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i  344 (431)
                      .              +.-.....+.||..++.    +...+++|++||.++.|+|++++  |. ..++|+.|+.++...+
T Consensus       103 ~~~~~~~kvviIdead~l~~~a~naLLk~lEe----p~~~~~~Il~t~~~~~l~~ti~S--Rc-~~~~~~~~~~~~~~~~  175 (334)
T 1a5t_A          103 HARLGGAKVVWVTDAALLTDAAANALLKTLEE----PPAETWFFLATREPERLLATLRS--RC-RLHYLAPPPEQYAVTW  175 (334)
T ss_dssp             CCTTSSCEEEEESCGGGBCHHHHHHHHHHHTS----CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHH
T ss_pred             ccccCCcEEEEECchhhcCHHHHHHHHHHhcC----CCCCeEEEEEeCChHhCcHHHhh--cc-eeeeCCCCCHHHHHHH
Confidence            2              22334567889999884    34558999999999999999999  55 4799999999998888


Q ss_pred             HHHhh
Q 035603          345 AKNYL  349 (431)
Q Consensus       345 ~~~~l  349 (431)
                      +....
T Consensus       176 L~~~~  180 (334)
T 1a5t_A          176 LSREV  180 (334)
T ss_dssp             HHHHC
T ss_pred             HHHhc
Confidence            87765

>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=99.26  E-value=2.3e-11  Score=125.05  Aligned_cols=150  Identities=16%  Similarity=0.259  Sum_probs=96.0

Q ss_pred             eccCCCCccccc-cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEe
Q 035603          185 YFEHPATFDTLA-MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDL  258 (431)
Q Consensus       185 ~~~~p~~f~~l~-g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l  258 (431)
                      ++.+..+|++++ |.....  ....+..+...+      |.  ..+++||||||||||+|+++||+++     +.+++.+
T Consensus        97 ~l~~~~tfd~fv~g~~n~~--a~~~~~~~a~~~------~~--~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v  166 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSF--AYHAALEVAKHP------GR--YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYI  166 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHH--HHHHHHHHHHST------TS--SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEE
T ss_pred             CCCCCCChhhcCCCCchHH--HHHHHHHHHhCC------CC--CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEe
Confidence            355557899987 544332  223344444332      22  5689999999999999999999988     8888888


Q ss_pred             cccCcCChHHHHH--------HHHHhhh-c------cc-----chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCC--
Q 035603          259 ELTSVENNNELRS--------LLVDISS-K------KK-----KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDK--  316 (431)
Q Consensus       259 ~~~~~~~~~~l~~--------l~~~~~~-~------~~-----~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~--  316 (431)
                      ++..+.  ..+..        .|..... .      ++     ........|+..++.+...  +..+||.|.+.+..  
T Consensus       167 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~--~~~iIitt~~~~~~l~  242 (440)
T 2z4s_A          167 TSEKFL--NDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDS--GKQIVICSDREPQKLS  242 (440)
T ss_dssp             EHHHHH--HHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTT--TCEEEEEESSCGGGCS
T ss_pred             eHHHHH--HHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHC--CCeEEEEECCCHHHHH
Confidence            876541  11111        1111111 1      11     1113455666666554322  23555555555554  


Q ss_pred             -CChhhhccCcee--EEEEcCCCCHHHHHHHHHHhhc
Q 035603          317 -LDPALIRRGRMD--KHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       317 -Ld~AllRpGRfd--~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                       ++++|++  ||+  ..+.++.|+.+++..+++..+.
T Consensus       243 ~l~~~L~s--R~~~g~~i~l~~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          243 EFQDRLVS--RFQMGLVAKLEPPDEETRKSIARKMLE  277 (440)
T ss_dssp             SCCHHHHH--HHHSSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh--hccCCeEEEeCCCCHHHHHHHHHHHHH
Confidence             8999999  886  8899999999999999988775

>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=99.26  E-value=1e-10  Score=116.77  Aligned_cols=153  Identities=12%  Similarity=0.033  Sum_probs=105.4

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccCcCC
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTSVEN  265 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~~~~  265 (431)
                      ..+++++|.++..+.|.+.+.......       .+..+.++|+||||||||++++++++.+    +..++.+++....+
T Consensus        14 ~~p~~l~gr~~~~~~l~~~l~~~~~~~-------~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~   86 (389)
T 1fnn_A           14 YVPKRLPHREQQLQQLDILLGNWLRNP-------GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRN   86 (389)
T ss_dssp             CCCSCCTTCHHHHHHHHHHHHHHHHST-------TSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCS
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcCC-------CCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCC
Confidence            344889999999998888776655431       1122389999999999999999999998    67788888765433


Q ss_pred             hHH-HHHHHH-------------------------Hhhhc--------ccchhhHHHHHHHHhcCcccCCCCceEEEEec
Q 035603          266 NNE-LRSLLV-------------------------DISSK--------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTT  311 (431)
Q Consensus       266 ~~~-l~~l~~-------------------------~~~~~--------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TT  311 (431)
                      ... +..++.                         .....        +......+..|+..++........++.+|++|
T Consensus        87 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~  166 (389)
T 1fnn_A           87 FTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVG  166 (389)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEE
T ss_pred             HHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEE
Confidence            211 111111                         11111        12234566777777765432111348899999


Q ss_pred             CCC---CCCChhhhccCceeE-EEEcCCCCHHHHHHHHHHhhch
Q 035603          312 NHV---DKLDPALIRRGRMDK-HIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       312 N~~---~~Ld~AllRpGRfd~-~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |.+   +.+++.+.+  |+.. .|++++++.++...++...+..
T Consensus       167 ~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~~  208 (389)
T 1fnn_A          167 HNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKA  208 (389)
T ss_dssp             SSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHH
T ss_pred             CCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHHh
Confidence            988   789999988  7765 8999999999999998887653

>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=7.4e-11  Score=130.77  Aligned_cols=141  Identities=18%  Similarity=0.246  Sum_probs=96.5

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEE
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYD  257 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~  257 (431)
                      .|.+|+.++|.++..+.+.+.+    ..         ..++++||+||||||||++++++|+.+          +.+++.
T Consensus       165 r~~~ld~viGr~~~i~~l~~~l----~~---------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  231 (854)
T 1qvr_A          165 AEGKLDPVIGRDEEIRRVIQIL----LR---------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS  231 (854)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHH----HC---------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE
T ss_pred             hcCCCcccCCcHHHHHHHHHHH----hc---------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEE
Confidence            4778999999987777766543    11         235689999999999999999999987          888999


Q ss_pred             ecccCcCC--------hHHHHHHHHHhhhc--------ccch-----------hhHHHHHHHHhcCcccCCCCceEEEEe
Q 035603          258 LELTSVEN--------NNELRSLLVDISSK--------KKKS-----------NVTLSGLLNCIGGLWSTCGGERIIVFT  310 (431)
Q Consensus       258 l~~~~~~~--------~~~l~~l~~~~~~~--------~~~~-----------~~~~s~lL~~ldg~~~~~~~~~ivI~T  310 (431)
                      ++++.+..        ...+..++......        +...           ....+.|...++      .+++.+|++
T Consensus       232 l~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~------~~~i~~I~a  305 (854)
T 1qvr_A          232 LQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA------RGELRLIGA  305 (854)
T ss_dssp             ECC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH------TTCCCEEEE
T ss_pred             eehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh------CCCeEEEEe
Confidence            98877632        23466666655432        1110           112223333332      134778898


Q ss_pred             cCCCC----CCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          311 TNHVD----KLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       311 TN~~~----~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ||.++    .+|++|.|  ||+. |.++.|+.+++..|++.++.
T Consensus       306 t~~~~~~~~~~d~aL~r--Rf~~-i~l~~p~~~e~~~iL~~~~~  346 (854)
T 1qvr_A          306 TTLDEYREIEKDPALER--RFQP-VYVDEPTVEETISILRGLKE  346 (854)
T ss_dssp             ECHHHHHHHTTCTTTCS--CCCC-EEECCCCHHHHHHHHHHHHH
T ss_pred             cCchHHhhhccCHHHHh--CCce-EEeCCCCHHHHHHHHHhhhh
Confidence            88775    58999999  9986 99999999999999987654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.23  E-value=2.8e-10  Score=111.79  Aligned_cols=176  Identities=9%  Similarity=0.091  Sum_probs=109.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEecccCcCCh----------------------HHHHHH
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLELTSVENN----------------------NELRSL  272 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~----------------------~~l~~l  272 (431)
                      ..+.+++||||||||||++++++++++          ++.++.+|+..+.+.                      ..+..+
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            346789999999999999999999998          456778887665332                      234555


Q ss_pred             HHHh---hhc---------cc-chhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC----ChhhhccCcee-EEEEcC
Q 035603          273 LVDI---SSK---------KK-KSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL----DPALIRRGRMD-KHIEMP  334 (431)
Q Consensus       273 ~~~~---~~~---------~~-~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L----d~AllRpGRfd-~~I~~~  334 (431)
                      |...   ...         +. .....+..|++...    .....++||+++|..+..    ++++.+  ||. ..|.|+
T Consensus       123 f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~----~~~s~~~vI~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~  196 (318)
T 3te6_A          123 ITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWIS----SKNSKLSIICVGGHNVTIREQINIMPSL--KAHFTEIKLN  196 (318)
T ss_dssp             HHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHH----CSSCCEEEEEECCSSCCCHHHHHTCHHH--HTTEEEEECC
T ss_pred             HHHhhhccCCceEEEEecHHHhhcchHHHHHHhccc----ccCCcEEEEEEecCcccchhhcchhhhc--cCCceEEEeC
Confidence            5543   111         11 12334444444322    233458999999998754    445556  776 689999


Q ss_pred             CCCHHHHHHHHHHhhchhcchhH---------------H--HHHh----Hhc-cCCCCHHHHHHHhcc--cCCCCCHHHH
Q 035603          335 YCCFEAFKVLAKNYLEIESHELF---------------H--EIGS----LLG-ETDITPADVAENLMP--KSDEDDAGTC  390 (431)
Q Consensus       335 ~p~~~~r~~i~~~~l~~~~~~~~---------------~--~i~~----l~~-~~~~s~adI~~~l~~--~~~~~~~~~~  390 (431)
                      +++.++...|++..+.......+               .  .-+.    +.. ..-++++-|. ++..  +...+|++.|
T Consensus       197 pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ai~-~~A~~vA~~~GD~R~A  275 (318)
T 3te6_A          197 KVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQ-LIAKNVANVSGSTEKA  275 (318)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHHHHH-HHHHHHHHHHCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHHHHH-HHHHHHHhhCChHHHH
Confidence            99999999999988754221100               0  0000    000 0024666664 4333  1357899999


Q ss_pred             HHHHHHHHHHHHHHHHh
Q 035603          391 LKNLIEALKAAKEKAKK  407 (431)
Q Consensus       391 l~~l~~~l~~~~~~~~~  407 (431)
                      ++-+..|.+....+..+
T Consensus       276 l~ilr~A~~~ae~e~~~  292 (318)
T 3te6_A          276 FKICEAAVEISKKDFVR  292 (318)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            99988888776655443

>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=99.22  E-value=5e-11  Score=113.58  Aligned_cols=147  Identities=14%  Similarity=0.133  Sum_probs=92.1

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCCh
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENN  266 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~  266 (431)
                      .+|++++|.+...+.+.+.+.....           .+.++||+||||||||++|+++++.++   .+++.++++.+.. 
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~-----------~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~-   70 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-   70 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTT-----------SCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCH-
T ss_pred             cccccceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCCh-
Confidence            4689999999998888877765443           246899999999999999999999885   6799999887632 


Q ss_pred             HHHH-HHHH------------------Hhhhc-------ccchhhHHHHHHHHhcCcc-------cCCCCceEEEEecCC
Q 035603          267 NELR-SLLV------------------DISSK-------KKKSNVTLSGLLNCIGGLW-------STCGGERIIVFTTNH  313 (431)
Q Consensus       267 ~~l~-~l~~------------------~~~~~-------~~~~~~~~s~lL~~ldg~~-------~~~~~~~ivI~TTN~  313 (431)
                      ..+. .+|.                  .+...       +.........|+..++.-.       ......+.||+|||.
T Consensus        71 ~~~~~~l~g~~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~  150 (265)
T 2bjv_A           71 NLLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (265)
T ss_dssp             HHHHHHHHCCC---------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESS
T ss_pred             hHHHHHhcCCcccccccccccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCc
Confidence            2222 2221                  11111       2223345566777776321       001124678999997


Q ss_pred             C-------CCCChhhhccCcee-EEEEcCCCCH--HHHHHHHHHhhc
Q 035603          314 V-------DKLDPALIRRGRMD-KHIEMPYCCF--EAFKVLAKNYLE  350 (431)
Q Consensus       314 ~-------~~Ld~AllRpGRfd-~~I~~~~p~~--~~r~~i~~~~l~  350 (431)
                      .       ..++++|.+  ||+ ..|.+|..+.  +....++++++.
T Consensus       151 ~~~~~~~~~~~~~~L~~--Rl~~~~i~lp~L~~R~~di~~l~~~~l~  195 (265)
T 2bjv_A          151 DLPAMVNEGTFRADLLD--ALAFDVVQLPPLRERESDIMLMAEYFAI  195 (265)
T ss_dssp             CHHHHHHHTSSCHHHHH--HHCSEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             CHHHHHHcCCccHHHHH--hhcCcEEeCCChhhhhHHHHHHHHHHHH
Confidence            4       357899998  885 5677776653  556666666653

>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=99.21  E-value=1.7e-10  Score=126.18  Aligned_cols=146  Identities=21%  Similarity=0.260  Sum_probs=100.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeE
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVY  256 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~  256 (431)
                      -.|..|+.++|.++..+.+.+.+.             ...+.++||+||||||||++++++|+.+          +..++
T Consensus       180 ~~~~~~d~~iGr~~~i~~l~~~l~-------------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~  246 (758)
T 1r6b_X          180 ARVGGIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIY  246 (758)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEE
T ss_pred             HhcCCCCCccCCHHHHHHHHHHHh-------------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEE
Confidence            356789999999888777655432             1246789999999999999999999987          66777


Q ss_pred             EecccCcCC--------hHHHHHHHHHhhhc-------ccchh--------hHHHHHHHHhcCcccCCCCceEEEEecCC
Q 035603          257 DLELTSVEN--------NNELRSLLVDISSK-------KKKSN--------VTLSGLLNCIGGLWSTCGGERIIVFTTNH  313 (431)
Q Consensus       257 ~l~~~~~~~--------~~~l~~l~~~~~~~-------~~~~~--------~~~s~lL~~ldg~~~~~~~~~ivI~TTN~  313 (431)
                      .+++..+..        ...+..++......       +....        .......+.+..+...  +++.+|++||.
T Consensus       247 ~~~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~~I~at~~  324 (758)
T 1r6b_X          247 SLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTY  324 (758)
T ss_dssp             ECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECH
T ss_pred             EEcHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeEEEEEeCc
Confidence            777665421        24566777655432       11110        0122334444444322  34788888886


Q ss_pred             C-----CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          314 V-----DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       314 ~-----~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      +     -.+|++|.|  ||+ .|.++.|+.+++..+++....
T Consensus       325 ~~~~~~~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~~  363 (758)
T 1r6b_X          325 QEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKP  363 (758)
T ss_dssp             HHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             hHHhhhhhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHHH
Confidence            4     368999999  998 699999999999999887653

>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=99.21  E-value=1.5e-10  Score=114.95  Aligned_cols=149  Identities=17%  Similarity=0.204  Sum_probs=100.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc------CCCeEEeccc
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL------NYDVYDLELT  261 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l------~~~i~~l~~~  261 (431)
                      +...+++++|-++..+.|.+.+...+..         ..++.++|+||||||||++++++++.+      +..++.+++.
T Consensus        15 ~~~~p~~~~gr~~e~~~l~~~l~~~~~~---------~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~   85 (386)
T 2qby_A           15 PDYIPDELPHREDQIRKIASILAPLYRE---------EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTR   85 (386)
T ss_dssp             SSCCCSCCTTCHHHHHHHHHSSGGGGGT---------CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHH
T ss_pred             CccCCCCCCChHHHHHHHHHHHHHHHcC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECC
Confidence            3345588999888888776655433221         335689999999999999999999988      8888888764


Q ss_pred             CcCC----------------------hHHHH-HHHHHhhh---c-----cc-------chhhHHHHHHHHhcCcccCCCC
Q 035603          262 SVEN----------------------NNELR-SLLVDISS---K-----KK-------KSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       262 ~~~~----------------------~~~l~-~l~~~~~~---~-----~~-------~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                      ...+                      ...+. .++.....   .     ++       .....+..|+..++..   .+.
T Consensus        86 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~---~~~  162 (386)
T 2qby_A           86 QIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV---NKS  162 (386)
T ss_dssp             HHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSC---CC-
T ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhc---CCC
Confidence            3211                      12222 22211111   1     11       1144566777777654   234


Q ss_pred             ceEEEEecCCC---CCCChhhhccCcee-EEEEcCCCCHHHHHHHHHHhhc
Q 035603          304 ERIIVFTTNHV---DKLDPALIRRGRMD-KHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       304 ~~ivI~TTN~~---~~Ld~AllRpGRfd-~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ++.+|++||.+   +.+++++.+  ||. ..|++++++.++...++...+.
T Consensus       163 ~~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~l~~~~~~~il~~~~~  211 (386)
T 2qby_A          163 KISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPPYNAEELEDILTKRAQ  211 (386)
T ss_dssp             -EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECCCCHHHHHHHHHHHHH
T ss_pred             eEEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCCCCHHHHHHHHHHHHH
Confidence            58889999877   578899988  664 5899999999999999988764

>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=99.17  E-value=1.6e-10  Score=113.20  Aligned_cols=114  Identities=13%  Similarity=0.160  Sum_probs=88.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc------CCCeEEecccC-cCChHHHHHHHHHhhhc--------------ccchhh
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL------NYDVYDLELTS-VENNNELRSLLVDISSK--------------KKKSNV  285 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l------~~~i~~l~~~~-~~~~~~l~~l~~~~~~~--------------~~~~~~  285 (431)
                      ...||||||||+|||++|+++|+.+      ..+++.++.++ -.+.+.+++++..+...              +.-...
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvviIdead~lt~~   97 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ   97 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEEeccHHHhCHH
Confidence            3489999999999999999999874      45788888764 33556788877665432              233445


Q ss_pred             HHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          286 TLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       286 ~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ..+.||..|+.    +++..++|++||.+++|.|++++  |   .++|++|+.++....++..+
T Consensus        98 a~naLLk~LEe----p~~~t~fIl~t~~~~kl~~tI~S--R---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           98 AANAFLKALEE----PPEYAVIVLNTRRWHYLLPTIKS--R---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHTHHHHHS----CCTTEEEEEEESCGGGSCHHHHT--T---SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC----CCCCeEEEEEECChHhChHHHHc--e---eEeCCCCCHHHHHHHHHHHh
Confidence            67889999884    34558888989999999999999  7   78999999888888777664

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.15  E-value=9.9e-11  Score=101.68  Aligned_cols=105  Identities=13%  Similarity=0.101  Sum_probs=73.7

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHH
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELR  270 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~  270 (431)
                      +++|.+...+.+.+.+.....           .+..+||+||||||||++|++|++..   +.+++ +++..+.....+.
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~-----------~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~~~~   69 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE-----------TDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAPQLN   69 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT-----------CCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSSCHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcchhhh
Confidence            467777887877776655432           34679999999999999999999987   77899 9998876555566


Q ss_pred             HHHHHhhhc-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCC
Q 035603          271 SLLVDISSK-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV  314 (431)
Q Consensus       271 ~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~  314 (431)
                      .++..+...       +.-.......|+..|...    ...+.+|+|||.+
T Consensus        70 ~~~~~a~~g~l~ldei~~l~~~~q~~Ll~~l~~~----~~~~~~I~~t~~~  116 (145)
T 3n70_A           70 DFIALAQGGTLVLSHPEHLTREQQYHLVQLQSQE----HRPFRLIGIGDTS  116 (145)
T ss_dssp             HHHHHHTTSCEEEECGGGSCHHHHHHHHHHHHSS----SCSSCEEEEESSC
T ss_pred             cHHHHcCCcEEEEcChHHCCHHHHHHHHHHHhhc----CCCEEEEEECCcC
Confidence            666655443       333445567788887433    2336688888864

>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=99.13  E-value=2.2e-10  Score=127.04  Aligned_cols=148  Identities=16%  Similarity=0.234  Sum_probs=105.0

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhCCC----CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA----WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVEN  265 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  265 (431)
                      +.|+|.++.++.|...+.....        |..    +...+||+||||||||++|++||+.+   +.+++.++++.+..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~--------g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~  629 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARA--------GLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME  629 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGG--------GCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCS
T ss_pred             cccCCcHHHHHHHHHHHHHHhc--------ccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccc
Confidence            5678888888888776654432        211    12479999999999999999999998   78899999887643


Q ss_pred             hHHHH-------------------HHHHHhhhc-------ccchhhHHHHHHHHhcCcccCC-------CCceEEEEecC
Q 035603          266 NNELR-------------------SLLVDISSK-------KKKSNVTLSGLLNCIGGLWSTC-------GGERIIVFTTN  312 (431)
Q Consensus       266 ~~~l~-------------------~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~-------~~~~ivI~TTN  312 (431)
                      ...+.                   ..+......       +......++.||..||.-.-..       -.+++||+|||
T Consensus       630 ~~~~s~l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn  709 (854)
T 1qvr_A          630 KHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSN  709 (854)
T ss_dssp             SGGGGGC--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECC
T ss_pred             hhHHHHHcCCCCCCcCccccchHHHHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecC
Confidence            21111                   111111111       3345677888999998432111       12578999999


Q ss_pred             C--------------------------CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          313 H--------------------------VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       313 ~--------------------------~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .                          ...+.|+|+.  |+|..+.+++|+.++...|+..++.
T Consensus       710 ~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~pl~~edi~~i~~~~l~  771 (854)
T 1qvr_A          710 LGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLS  771 (854)
T ss_dssp             TTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             cChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCCCCHHHHHHHHHHHHH
Confidence            7                          2357888888  9999999999999999999998875

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.04  E-value=1.2e-09  Score=113.71  Aligned_cols=137  Identities=18%  Similarity=0.132  Sum_probs=85.4

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC--CeEEecccCcCChHHHH-
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY--DVYDLELTSVENNNELR-  270 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~--~i~~l~~~~~~~~~~l~-  270 (431)
                      .|+|.+++++.+...+.               .+.++||+||||||||++|++||+.++.  ++..+++.. .+.+++- 
T Consensus        23 ~ivGq~~~i~~l~~al~---------------~~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~-~t~~dL~G   86 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAAL---------------SGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRF-STPEEVFG   86 (500)
T ss_dssp             TCSSCHHHHHHHHHHHH---------------HTCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTT-CCHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHh---------------cCCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhc-CCHHHhcC
Confidence            35777777766543321               1358999999999999999999999854  333333321 1111111 


Q ss_pred             ----------HHHHHhhhc-------------ccchhhHHHHHHHHhcC-------cccCCCCceEEEEecCCCC---CC
Q 035603          271 ----------SLLVDISSK-------------KKKSNVTLSGLLNCIGG-------LWSTCGGERIIVFTTNHVD---KL  317 (431)
Q Consensus       271 ----------~l~~~~~~~-------------~~~~~~~~s~lL~~ldg-------~~~~~~~~~ivI~TTN~~~---~L  317 (431)
                                ..+......             +.....+.+.|+..|+.       ..... ...++|+|||.+.   .+
T Consensus        87 ~~~~~~~~~~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~-~~~~iI~ATN~lpe~~~~  165 (500)
T 3nbx_X           87 PLSIQALKDEGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKI-PMRLLVAASNELPEADSS  165 (500)
T ss_dssp             CBC----------CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEEC-CCCEEEEEESSCCCTTCT
T ss_pred             cccHHHHhhchhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCc-chhhhhhccccCCCcccc
Confidence                      111100000             23446678888888853       21111 2246788888532   24


Q ss_pred             ChhhhccCceeEEEEcCCCCH-HHHHHHHHHhh
Q 035603          318 DPALIRRGRMDKHIEMPYCCF-EAFKVLAKNYL  349 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~-~~r~~i~~~~l  349 (431)
                      .+|+++  ||..+|.+|+|+. +++..|++...
T Consensus       166 ~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          166 LEALYD--RMLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             THHHHT--TCCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             HHHHHH--HHHHHHHHHHhhhhhhHHHHHhccc
Confidence            569999  9999999999986 77888887654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.02  E-value=1.1e-09  Score=107.07  Aligned_cols=144  Identities=19%  Similarity=0.219  Sum_probs=92.6

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChHHHH
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNNELR  270 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~  270 (431)
                      +++|.+...+.+.+.+....           +.+.++||+||||||||++|++|++..   +.+++.++++.+...---.
T Consensus         3 ~iig~s~~~~~~~~~~~~~a-----------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~   71 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVA-----------PSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLES   71 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHC-----------STTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHH
T ss_pred             CcEECCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHH
Confidence            57788888888777665543           235689999999999999999999975   5789999988763221112


Q ss_pred             HHHH------------------Hhhhc-------ccchhhHHHHHHHHhcCccc-------CCCCceEEEEecCCC----
Q 035603          271 SLLV------------------DISSK-------KKKSNVTLSGLLNCIGGLWS-------TCGGERIIVFTTNHV----  314 (431)
Q Consensus       271 ~l~~------------------~~~~~-------~~~~~~~~s~lL~~ldg~~~-------~~~~~~ivI~TTN~~----  314 (431)
                      .+|.                  .+...       +.-.......|+..++...-       .....+.||+|||..    
T Consensus        72 ~lfg~~~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~  151 (304)
T 1ojl_A           72 ELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEE  151 (304)
T ss_dssp             HHTCCCSSCCC---CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHH
T ss_pred             HhcCccccccCchhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHH
Confidence            2221                  11111       22234456677887764320       011247889999975    


Q ss_pred             ---CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 ---DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 ---~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                         ..++++|..  || ...|.+|+..  .+....++.+++.
T Consensus       152 v~~g~fr~~L~~--Rl~~~~i~lPpL~eR~edi~~l~~~~l~  191 (304)
T 1ojl_A          152 VSAGRFRQDLYY--RLNVVAIEMPSLRQRREDIPLLADHFLR  191 (304)
T ss_dssp             HHHTSSCHHHHH--HHSSEEEECCCSGGGGGGHHHHHHHHHH
T ss_pred             HHhCCcHHHHHh--hcCeeEEeccCHHHhHhhHHHHHHHHHH
Confidence               346677777  77 4557777765  4556667776664

>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=98.98  E-value=1.6e-09  Score=130.87  Aligned_cols=121  Identities=24%  Similarity=0.381  Sum_probs=86.8

Q ss_pred             CceeEEeCCCCCcHHHHH-HHHHHHcCCCeEEecccCcCChHHHHHHHHHhhh----------------c------c---
Q 035603          227 KRGYLLFGPPGTGKSTMI-AAMANCLNYDVYDLELTSVENNNELRSLLVDISS----------------K------K---  280 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla-~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~----------------~------~---  280 (431)
                      ++++||+||||||||++| +++++..++.++.++++...+...+.+.+.....                +      +   
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            579999999999999999 5666666888899999888777777777654311                0      0   


Q ss_pred             -----cchhhHHHHHHH-Hh--cCcccCCC------CceEEEEecCCCC-----CCChhhhccCceeEEEEcCCCCHHHH
Q 035603          281 -----KKSNVTLSGLLN-CI--GGLWSTCG------GERIIVFTTNHVD-----KLDPALIRRGRMDKHIEMPYCCFEAF  341 (431)
Q Consensus       281 -----~~~~~~~s~lL~-~l--dg~~~~~~------~~~ivI~TTN~~~-----~Ld~AllRpGRfd~~I~~~~p~~~~r  341 (431)
                           .........+|+ .+  +|++....      .++.+|+|||++.     .|||+|+|  || ..|.++.|+.+++
T Consensus      1347 mp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~vi~i~~P~~~~l 1423 (2695)
T 4akg_A         1347 LPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AILYLGYPSGKSL 1423 (2695)
T ss_dssp             CSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EEEECCCCTTTHH
T ss_pred             cccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eEEEeCCCCHHHH
Confidence                 001112223333 22  34433211      2478999999995     89999999  88 7899999999999


Q ss_pred             HHHHHHhhc
Q 035603          342 KVLAKNYLE  350 (431)
Q Consensus       342 ~~i~~~~l~  350 (431)
                      ..|+..++.
T Consensus      1424 ~~I~~~il~ 1432 (2695)
T 4akg_A         1424 SQIYEIYYK 1432 (2695)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.97  E-value=4.5e-10  Score=97.31  Aligned_cols=124  Identities=10%  Similarity=0.030  Sum_probs=80.1

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHH
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      +++|.++..+.+.+.+..+..           .+..+||+||||||||++|+++++..+ +++.++++.+... ....++
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~-----------~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~-~~~~~~   71 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK-----------RTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLID-MPMELL   71 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT-----------CSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHH-CHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----------CCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChH-hhhhHH
Confidence            467778888888887765543           246799999999999999999999988 8999988875321 144555


Q ss_pred             HHhhhc-------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCC-CC----CChhhhccCce-eEEEEcCC
Q 035603          274 VDISSK-------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV-DK----LDPALIRRGRM-DKHIEMPY  335 (431)
Q Consensus       274 ~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~-~~----Ld~AllRpGRf-d~~I~~~~  335 (431)
                      ..+...       +.........|+..++...   ..++.+|+|||.+ +.    +++.|..  |+ ...|++|+
T Consensus        72 ~~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~---~~~~~iI~~tn~~~~~~~~~~~~~L~~--rl~~~~i~lPp  141 (143)
T 3co5_A           72 QKAEGGVLYVGDIAQYSRNIQTGITFIIGKAE---RCRVRVIASCSYAAGSDGISCEEKLAG--LFSESVVRIPP  141 (143)
T ss_dssp             HHTTTSEEEEEECTTCCHHHHHHHHHHHHHHT---TTTCEEEEEEEECTTTC--CHHHHHHH--HSSSEEEEECC
T ss_pred             HhCCCCeEEEeChHHCCHHHHHHHHHHHHhCC---CCCEEEEEecCCCHHHHHhCccHHHHH--HhcCcEEeCCC
Confidence            544433       2333445556777766432   2346788888854 33    3445554  43 44677765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.95  E-value=1.9e-10  Score=122.54  Aligned_cols=120  Identities=18%  Similarity=0.204  Sum_probs=79.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc----cCcCC---hHHH-------HHHHHHhhhc-------ccchhhHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL----TSVEN---NNEL-------RSLLVDISSK-------KKKSNVTL  287 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~----~~~~~---~~~l-------~~l~~~~~~~-------~~~~~~~~  287 (431)
                      ++||+||||||||++|+++|+.++..++....    .++..   .+..       ...+..+...       +.......
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q  408 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAVIDEIDKMRDEDR  408 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHHHHSSSEECCTTTTCCCSHHH
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeEecCCCcEEeehhhhCCHhHh
Confidence            79999999999999999999999876655321    22100   0000       0011111111       33345567


Q ss_pred             HHHHHHhcCc---------ccCCCCceEEEEecCCCC-------------CCChhhhccCcee-EEEEcCCCCHHHHHHH
Q 035603          288 SGLLNCIGGL---------WSTCGGERIIVFTTNHVD-------------KLDPALIRRGRMD-KHIEMPYCCFEAFKVL  344 (431)
Q Consensus       288 s~lL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~AllRpGRfd-~~I~~~~p~~~~r~~i  344 (431)
                      +.|+..|+.-         .......+.||+|||.++             .|++||++  ||| ..+..++|+.+ ...|
T Consensus       409 ~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i  485 (595)
T 3f9v_A          409 VAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILS--RFDLIFILKDQPGEQ-DREL  485 (595)
T ss_dssp             HHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGG--GCSCCEEECCTTHHH-HHHH
T ss_pred             hhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHh--hCeEEEEeCCCCCHH-HHHH
Confidence            7788888632         112223578999999987             89999999  998 46667888888 8888


Q ss_pred             HHHhhch
Q 035603          345 AKNYLEI  351 (431)
Q Consensus       345 ~~~~l~~  351 (431)
                      +++.+..
T Consensus       486 ~~~il~~  492 (595)
T 3f9v_A          486 ANYILDV  492 (595)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHH
Confidence            8877653

>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=98.87  E-value=6.4e-10  Score=111.83  Aligned_cols=106  Identities=19%  Similarity=0.184  Sum_probs=72.2

Q ss_pred             hCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhh----hc---cc--------chhhH
Q 035603          222 IGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDIS----SK---KK--------KSNVT  286 (431)
Q Consensus       222 ~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~----~~---~~--------~~~~~  286 (431)
                      .+++.++.++|+||||+||||++++||+.++..++.++...-.....+..++....    .-   ..        ....+
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~~~~~~lg~~~q~~~~l~dd~~~~~~~~r~l~~~~~~~~  243 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINN  243 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccchhHHHHHHHhcchhHHHHHHHHHHHHHHhhccccCcchH
Confidence            47888899999999999999999999999887766544332110011111111100    00   00        11113


Q ss_pred             HHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCC
Q 035603          287 LSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPY  335 (431)
Q Consensus       287 ~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~  335 (431)
                      .+.+.+.+||.       +.|+++|||++.+ ++++||||++..++..+
T Consensus       244 ~~~l~~~ldG~-------v~v~~~tn~~~~l-~alf~pg~ld~~~~~l~  284 (377)
T 1svm_A          244 LDNLRDYLDGS-------VKVNLEKKHLNKR-TQIFPPGIVTMNEYSVP  284 (377)
T ss_dssp             HHTTHHHHHCS-------SCEEECCSSSCCE-EECCCCEEEEECSCCCC
T ss_pred             HHHHHHHhcCC-------CeEeeccCchhhH-HHhhcCcccChhHHhhc
Confidence            46778888874       5678899999999 79999999999988876

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.83  E-value=1.1e-08  Score=91.52  Aligned_cols=69  Identities=17%  Similarity=0.278  Sum_probs=49.8

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      .+.+|++++...+..+.+.+.+..+..+      +.++.+++++|+||||||||+|++++|+.+    |..++.++..+
T Consensus         5 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~------~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~   77 (180)
T 3ec2_A            5 WNANLDTYHPKNVSQNRALLTIRVFVHN------FNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKD   77 (180)
T ss_dssp             TTCCSSSCCCCSHHHHHHHHHHHHHHHS------CCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHH
T ss_pred             hhCccccccCCCHHHHHHHHHHHHHHHh------ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            4578999887555555555666655543      334456899999999999999999999987    55666555443

>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=98.73  E-value=9.1e-08  Score=96.01  Aligned_cols=150  Identities=13%  Similarity=0.101  Sum_probs=91.5

Q ss_pred             CccccccChhhHHHHHHHH-HHHHhCHHHHHHhCCCCCceeEE--eCCCCCcHHHHHHHHHHHc---------CCCeEEe
Q 035603          191 TFDTLAMASKKKEAIKKDL-IKFTEGKEYYAKIGKAWKRGYLL--FGPPGTGKSTMIAAMANCL---------NYDVYDL  258 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l-~~~~~~~~~~~~~g~~~~rg~LL--~GPPGtGKTsla~aiA~~l---------~~~i~~l  258 (431)
                      ..+.++|-++..+.|.+.+ .......       ...++.++|  +||||+|||++++++++.+         +..++.+
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~~~-------~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~   92 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLSGA-------GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYV   92 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSS-------CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhcCC-------CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEE
Confidence            3477888888888877766 4433220       013467899  9999999999999999876         4566777


Q ss_pred             cccCcCChH----------------------HH----HHHHHHhhhc-----ccc---------hhhHHHHHHHHhcCcc
Q 035603          259 ELTSVENNN----------------------EL----RSLLVDISSK-----KKK---------SNVTLSGLLNCIGGLW  298 (431)
Q Consensus       259 ~~~~~~~~~----------------------~l----~~l~~~~~~~-----~~~---------~~~~~s~lL~~ldg~~  298 (431)
                      ++....+..                      .+    ...+......     ++.         ....+..++..++...
T Consensus        93 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~  172 (412)
T 1w5s_A           93 NAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP  172 (412)
T ss_dssp             EGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC
T ss_pred             ECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcc
Confidence            754322211                      11    1111111111     111         1244444555554331


Q ss_pred             cCCC--CceEEEEecCCCC---CCC---hhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          299 STCG--GERIIVFTTNHVD---KLD---PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       299 ~~~~--~~~ivI~TTN~~~---~Ld---~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      . .+  ..+.+|+|||.++   .++   +.+.+  |+...|.+++++.++..+++...+.
T Consensus       173 ~-~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~l~~~e~~~ll~~~~~  229 (412)
T 1w5s_A          173 S-RDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAE  229 (412)
T ss_dssp             C-TTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             c-CCCCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCCCCHHHHHHHHHHHHH
Confidence            0 12  4588888888665   344   66767  5555699999999999999877654

>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=98.63  E-value=8.1e-07  Score=107.58  Aligned_cols=117  Identities=21%  Similarity=0.221  Sum_probs=86.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc---------ccchhhHHHHH-------
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK---------KKKSNVTLSGL-------  290 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~s~l-------  290 (431)
                      ..|.+++||||||||++++++|+.+|.+++.+++++-.+...+..+|..+...         +.....+++.+       
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~~~evLs~l~~~l~~i  724 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQI  724 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHHH
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhcChHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999999988888888888776654         22333344443       


Q ss_pred             HHHh---------cCcccCCCCceEEEEecC----CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHH
Q 035603          291 LNCI---------GGLWSTCGGERIIVFTTN----HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAK  346 (431)
Q Consensus       291 L~~l---------dg~~~~~~~~~ivI~TTN----~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~  346 (431)
                      ++.+         +|-.-.......|++|.|    ....||++|.+  || +.|.|.+|+.+...++.-
T Consensus       725 ~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~--~F-r~v~m~~Pd~~~i~ei~l  790 (2695)
T 4akg_A          725 QNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKK--SF-REFSMKSPQSGTIAEMIL  790 (2695)
T ss_dssp             HHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHT--TE-EEEECCCCCHHHHHHHHH
T ss_pred             HHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHh--he-EEEEeeCCCHHHHHHHHH
Confidence            2222         111111122356888998    45679999999  88 789999999988777653

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.55  E-value=1.2e-07  Score=86.89  Aligned_cols=35  Identities=26%  Similarity=0.350  Sum_probs=30.4

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      |+|.++++|||||||||||++|.+||+.++-.++.
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~   88 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   88 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence            57778899999999999999999999998765543

>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=98.51  E-value=9.1e-08  Score=111.34  Aligned_cols=65  Identities=15%  Similarity=0.223  Sum_probs=45.4

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhC----------HHHHHH------hC------------CCCCceeEEeCCCCCcHH
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEG----------KEYYAK------IG------------KAWKRGYLLFGPPGTGKS  241 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~----------~~~~~~------~g------------~~~~rg~LL~GPPGtGKT  241 (431)
                      .+|+++.+.++.|+.+++.+.+++..          ++.|+.      .|            .|..|.+|||||||||||
T Consensus      1017 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~GKT 1096 (1706)
T 3cmw_A         1017 SSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKT 1096 (1706)
T ss_dssp             -------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHH
T ss_pred             ceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCChH
Confidence            78999999999999999999999843          344554      22            333444999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 035603          242 TMIAAMANCLNYD  254 (431)
Q Consensus       242 sla~aiA~~l~~~  254 (431)
                      +||+++|.+...+
T Consensus      1097 ~la~~~~~~~~~~ 1109 (1706)
T 3cmw_A         1097 TLTLQVIAAAQRE 1109 (1706)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhc
Confidence            9999999876443

>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=98.48  E-value=6.7e-07  Score=85.39  Aligned_cols=29  Identities=31%  Similarity=0.597  Sum_probs=25.9

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +++.+++||||||||||+++.|||+.++.
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            55679999999999999999999998654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.47  E-value=2.2e-07  Score=98.97  Aligned_cols=53  Identities=36%  Similarity=0.376  Sum_probs=42.3

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      -+|..|++++|.+.+++.+...+.               ....+||+||||||||+++++||+.+...
T Consensus        35 ~rp~~l~~i~G~~~~l~~l~~~i~---------------~g~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           35 VPEKLIDQVIGQEHAVEVIKTAAN---------------QKRHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             CCSSHHHHCCSCHHHHHHHHHHHH---------------TTCCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             ccccccceEECchhhHhhcccccc---------------CCCEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            357889999999888776654332               13589999999999999999999988643

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.36  E-value=4.7e-07  Score=82.07  Aligned_cols=69  Identities=20%  Similarity=0.258  Sum_probs=48.4

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC-CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA-WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .+.+|+++.+.+...+.+.+.+..++..      .+.. .+++++|+||||||||++++++|+++   +.+++.+++..
T Consensus        20 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~   92 (202)
T 2w58_A           20 LRASLSDVDLNDDGRIKAIRFAERFVAE------YEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPE   92 (202)
T ss_dssp             GCCCTTSSCCSSHHHHHHHHHHHHHHHH------CCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHH
T ss_pred             HcCCHhhccCCChhHHHHHHHHHHHHHH------hhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHH
Confidence            3578999988765445555556555542      1111 13799999999999999999999987   56776666543

>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=98.28  E-value=5.4e-07  Score=88.22  Aligned_cols=96  Identities=14%  Similarity=0.172  Sum_probs=58.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC--eEEecccC----c-CChHH-HHHHHHHhhh--c-----------cc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD--VYDLELTS----V-ENNNE-LRSLLVDISS--K-----------KK  281 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~--i~~l~~~~----~-~~~~~-l~~l~~~~~~--~-----------~~  281 (431)
                      |++.++.+||+||||||||+|+.++|...|..  ++.++..+    . .+.+. +..+......  .           ..
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~LLVIDsI~aL~~~~  198 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNVIGAA  198 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCTTTC---
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCCEEEEeccccccccc
Confidence            55666778999999999999999999876555  44441111    1 11222 2222222221  1           11


Q ss_pred             ch-------hhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhh
Q 035603          282 KS-------NVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPAL  321 (431)
Q Consensus       282 ~~-------~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~Al  321 (431)
                      ..       ...+.++|..|+++....+  +.+|++|| +...|+++
T Consensus       199 ~~~s~~G~v~~~lrqlL~~L~~~~k~~g--vtVIlttn-p~s~deal  242 (331)
T 2vhj_A          199 GGNTTSGGISRGAFDLLSDIGAMAASRG--CVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             --------CCHHHHHHHHHHHHHHHHHT--CEEEEECC-CSSCSSSH
T ss_pred             ccccccchHHHHHHHHHHHHHHHHhhCC--CEEEEEeC-CcccchhH
Confidence            11       3557788888887754433  78888888 66677664

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.25  E-value=2.4e-05  Score=95.79  Aligned_cols=119  Identities=19%  Similarity=0.154  Sum_probs=86.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHHhhhc---------ccchhhHHHHHHHHhc--
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK---------KKKSNVTLSGLLNCIG--  295 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~s~lL~~ld--  295 (431)
                      ..|..+.||+|||||.+++.+|+.+|..++.++|++-.+...+.++|......         +.....+++.+...+.  
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~~~vLSvv~~qi~~I  683 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLEERILSAVSQQIQTI  683 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHHH
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcCCHHHHHHHHHHHHHH
Confidence            35678999999999999999999999999999999887777888888776654         2233444444433222  


Q ss_pred             ---------------CcccCCCCceEEEEecC----CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHh
Q 035603          296 ---------------GLWSTCGGERIIVFTTN----HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       296 ---------------g~~~~~~~~~ivI~TTN----~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                                     |-.-.-.....|++|.|    ....||++|..  || +.|.|+.|+.+...+++-.-
T Consensus       684 ~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~--lF-r~v~m~~Pd~~~i~ei~L~s  752 (3245)
T 3vkg_A          684 QVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK--LF-RSMAMIKPDREMIAQVMLYS  752 (3245)
T ss_dssp             HHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT--TE-EEEECCSCCHHHHHHHHHHT
T ss_pred             HHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh--hc-EEEEEeCCCHHHHHHHHHHH
Confidence                           21111122367888998    34689999999  77 66999999999888775443

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.19  E-value=1.9e-06  Score=84.20  Aligned_cols=67  Identities=24%  Similarity=0.361  Sum_probs=47.1

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC----CCeEEeccc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN----YDVYDLELT  261 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~----~~i~~l~~~  261 (431)
                      +.+|+++.+...-...+.+.+..|+..      .+...+++++|+||||||||+|+.+||+++.    .+++.++..
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~------~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQ------YPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHH------CSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHh------ccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            478999987654444455555555542      2212357999999999999999999998665    666666554

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.15  E-value=6e-06  Score=100.91  Aligned_cols=121  Identities=17%  Similarity=0.320  Sum_probs=82.8

Q ss_pred             CceeEEeCCCCCcHHHHHHH-HHHHcCCCeEEecccCcCChHHHHHHHHHhh-----------------hc---------
Q 035603          227 KRGYLLFGPPGTGKSTMIAA-MANCLNYDVYDLELTSVENNNELRSLLVDIS-----------------SK---------  279 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~a-iA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~-----------------~~---------  279 (431)
                      ++.+||+||||||||++++. +++..+.+++.++++.-.+...+...+....                 ++         
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            46899999999999987754 5555577788899998888877877775311                 11         


Q ss_pred             -----cc-chhhHHHHHHHHhc--CcccCCC------CceEEEEecCCC-----CCCChhhhccCceeEEEEcCCCCHHH
Q 035603          280 -----KK-KSNVTLSGLLNCIG--GLWSTCG------GERIIVFTTNHV-----DKLDPALIRRGRMDKHIEMPYCCFEA  340 (431)
Q Consensus       280 -----~~-~~~~~~s~lL~~ld--g~~~~~~------~~~ivI~TTN~~-----~~Ld~AllRpGRfd~~I~~~~p~~~~  340 (431)
                           +. .....+..|...+|  |+.....      .++.+|+|+|.|     ..|+|+|+|  ||-. |.+++|+.++
T Consensus      1384 Nmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F~v-i~i~~ps~es 1460 (3245)
T 3vkg_A         1384 NLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HAPI-LLVDFPSTSS 1460 (3245)
T ss_dssp             TCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TCCE-EECCCCCHHH
T ss_pred             CCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hceE-EEeCCCCHHH
Confidence                 00 11223333444443  2222111      246789999988     369999999  8865 9999999999


Q ss_pred             HHHHHHHhhc
Q 035603          341 FKVLAKNYLE  350 (431)
Q Consensus       341 r~~i~~~~l~  350 (431)
                      ...|+..++.
T Consensus      1461 L~~If~til~ 1470 (3245)
T 3vkg_A         1461 LTQIYGTFNR 1470 (3245)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999776543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.09  E-value=5.2e-06  Score=72.25  Aligned_cols=39  Identities=18%  Similarity=0.262  Sum_probs=32.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      ....++|+||+|+|||+|++++++.+   |..++.++...+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~   76 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMP   76 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhh
Confidence            35689999999999999999999988   7777777776654

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=97.96  E-value=5.3e-06  Score=75.88  Aligned_cols=107  Identities=13%  Similarity=0.114  Sum_probs=63.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH--------cC-CCeEEecccCcCC---------------------hHHHHHHHHHhh
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC--------LN-YDVYDLELTSVEN---------------------NNELRSLLVDIS  277 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~--------l~-~~i~~l~~~~~~~---------------------~~~l~~l~~~~~  277 (431)
                      --+|++||||||||++|.+++..        .| .+++..++.++..                     ...+..++....
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            36899999999999999887544        34 6666555443310                     122333221111


Q ss_pred             hc------ccch--------hhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHH
Q 035603          278 SK------KKKS--------NVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFE  339 (431)
Q Consensus       278 ~~------~~~~--------~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~  339 (431)
                      .+      ++..        ......+|..+..-   .....-||++|++++.||.++..  |++.+++++.|...
T Consensus        86 ~~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~---r~~~~~iil~tq~~~~l~~~lr~--ri~~~~~l~~~~~~  156 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARSAGSKIPENVQWLNTH---RHQGIDIFVLTQGPKLLDQNLRT--LVRKHYHIASNKMG  156 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCCTTCCCCHHHHGGGGT---TTTTCEEEEEESCGGGBCHHHHT--TEEEEEEEEECSSC
T ss_pred             cCceEEEEEChhhhccCccccchhHHHHHHHHhc---CcCCeEEEEECCCHHHHhHHHHH--HhheEEEEcCcccC
Confidence            11      1111        01112355555432   23346778888889999999887  99999999986544

>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=97.96  E-value=3.4e-05  Score=77.09  Aligned_cols=172  Identities=17%  Similarity=0.158  Sum_probs=98.5

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC--eEEecccCcCChHHHHH
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD--VYDLELTSVENNNELRS  271 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~--i~~l~~~~~~~~~~l~~  271 (431)
                      .++|.......+.+.+.....           ....+|++|++||||+.+|+++....+..  ++.+|++.+....--..
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~-----------~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~  198 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAK-----------SKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESE  198 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHT-----------SCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHH
T ss_pred             cccccchHHHHHHhhhhhhhc-----------cchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHH
Confidence            466776666666555443322           23569999999999999999999877654  99999998854433344


Q ss_pred             HHHHhh------------------hc-------ccchhhHHHHHHHHhcCcc-cCCCC------ceEEEEecCCC-----
Q 035603          272 LLVDIS------------------SK-------KKKSNVTLSGLLNCIGGLW-STCGG------ERIIVFTTNHV-----  314 (431)
Q Consensus       272 l~~~~~------------------~~-------~~~~~~~~s~lL~~ldg~~-~~~~~------~~ivI~TTN~~-----  314 (431)
                      +|....                  +.       +.-+......||..|+.-. ..-|+      .+-+|+|||..     
T Consensus       199 lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v  278 (368)
T 3dzd_A          199 LFGHEKGAFTGALTRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEI  278 (368)
T ss_dssp             HHEECSCSSSSCCCCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHH
T ss_pred             hcCccccccCCcccccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHH
Confidence            443221                  11       2334456677787775311 11111      24578888852     


Q ss_pred             --CCCChhhhccCcee-EEEEcCCCCH--HHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhcccCCCCC
Q 035603          315 --DKLDPALIRRGRMD-KHIEMPYCCF--EAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLMPKSDEDD  386 (431)
Q Consensus       315 --~~Ld~AllRpGRfd-~~I~~~~p~~--~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~~~~~~~~  386 (431)
                        ..+.+.|..  |+. ..|++|+...  +....++.+|+....       ...-. ..++|+.-+. .|.....+++
T Consensus       279 ~~g~fr~dL~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~-------~~~~~~~~~~~~~a~~-~L~~~~wpGN  346 (368)
T 3dzd_A          279 KKGNFREDLYY--RLSVFQIYLPPLRERGKDVILLAEYFLKKFA-------KEYKKNCFELSEETKE-YLMKQEWKGN  346 (368)
T ss_dssp             HTTSSCHHHHH--HHTSEEEECCCGGGSTTHHHHHHHHHHHHHH-------HHTTCCCCCBCHHHHH-HHHTCCCTTH
T ss_pred             HcCCccHHHHH--HhCCeEEeCCChhhchhhHHHHHHHHHHHHH-------HHcCCCCCCcCHHHHH-HHHhCCCCcH
Confidence              123334443  332 3678887654  666777777764211       01111 1357776664 4444444554

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.95  E-value=0.0002  Score=69.63  Aligned_cols=56  Identities=29%  Similarity=0.257  Sum_probs=41.1

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      ..-+.++|-++..+.|.+ +    ..            +.++++||+|+|||+|++.+++.++..++.+++..
T Consensus        10 ~~~~~~~gR~~el~~L~~-l----~~------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~   65 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-L----RA------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   65 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-T----CS------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCHHHhcChHHHHHHHHH-h----cC------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchh
Confidence            344667776655555433 2    21            48999999999999999999999887777777654

>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=97.94  E-value=5.4e-05  Score=76.08  Aligned_cols=146  Identities=20%  Similarity=0.154  Sum_probs=86.9

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChHH
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNNE  268 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~  268 (431)
                      ++.++|.....+.+.+.+....           +....+|++|++|||||++|++|....+   .+|+.+|++.+....-
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~a-----------~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~  204 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKIS-----------CAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIF  204 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHT-----------TCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHH
T ss_pred             chhhhhccHHhhHHHHHHHHhc-----------CCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHH
Confidence            3456666666666666554422           2245689999999999999999998765   5899999998743322


Q ss_pred             HHHHHHHhhh------------------c-------ccchhhHHHHHHHHhcCcc-----cC--CCCceEEEEecCCC--
Q 035603          269 LRSLLVDISS------------------K-------KKKSNVTLSGLLNCIGGLW-----ST--CGGERIIVFTTNHV--  314 (431)
Q Consensus       269 l~~l~~~~~~------------------~-------~~~~~~~~s~lL~~ldg~~-----~~--~~~~~ivI~TTN~~--  314 (431)
                      -..+|....+                  .       +.-+......||..|+.-.     +.  ..-.+-||+|||..  
T Consensus       205 ~~elfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~  284 (387)
T 1ny5_A          205 EAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIK  284 (387)
T ss_dssp             HHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHH
T ss_pred             HHHhcCCCCCCCCCcccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHH
Confidence            2334432211                  0       2233455666777765311     00  01135688999863  


Q ss_pred             -----CCCChhhhccCce-eEEEEcCCCC--HHHHHHHHHHhhc
Q 035603          315 -----DKLDPALIRRGRM-DKHIEMPYCC--FEAFKVLAKNYLE  350 (431)
Q Consensus       315 -----~~Ld~AllRpGRf-d~~I~~~~p~--~~~r~~i~~~~l~  350 (431)
                           ..+.+.|.-  |+ ...|++|+..  .+....|+.+|+.
T Consensus       285 ~~~~~g~fr~dl~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~  326 (387)
T 1ny5_A          285 ELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLK  326 (387)
T ss_dssp             HHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             HHHHcCCccHHHHH--hhcCCeecCCcchhccccHHHHHHHHHH
Confidence                 234444443  33 3557777654  3666667777764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.91  E-value=0.00034  Score=67.86  Aligned_cols=55  Identities=16%  Similarity=0.139  Sum_probs=40.2

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      |..-+.++|-++..+.|.+.+..           |    +.++++||+|+|||+|++.+++.++  ++.+++
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~-----------~----~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~   62 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLEN-----------Y----PLTLLLGIRRVGKSSLLRAFLNERP--GILIDC   62 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHH-----------C----SEEEEECCTTSSHHHHHHHHHHHSS--EEEEEH
T ss_pred             CCChHhcCChHHHHHHHHHHHhc-----------C----CeEEEECCCcCCHHHHHHHHHHHcC--cEEEEe
Confidence            34456678877776666554421           2    5899999999999999999999886  444544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.91  E-value=3.8e-05  Score=69.47  Aligned_cols=33  Identities=24%  Similarity=0.428  Sum_probs=29.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++-++|.||||+||||+++.|+..+|+.+++.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~d   50 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEGD   50 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeCC
Confidence            356899999999999999999999998877654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.84  E-value=9.6e-06  Score=72.18  Aligned_cols=34  Identities=24%  Similarity=0.330  Sum_probs=30.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++.++|.||||||||++++++|..+|+++++.+.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d~   38 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSDK   38 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEChH
Confidence            4579999999999999999999999999987653

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.80  E-value=1.2e-05  Score=72.79  Aligned_cols=34  Identities=35%  Similarity=0.352  Sum_probs=30.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ..+.++|.|||||||||++++||..+++.+++.+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            3467999999999999999999999999988765

>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=97.78  E-value=1.4e-05  Score=71.40  Aligned_cols=35  Identities=26%  Similarity=0.302  Sum_probs=30.2

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .+.+.-++|.||||+||||+++.+|..+++.++..
T Consensus         2 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             CSCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            34556789999999999999999999999887764

>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=97.78  E-value=1.8e-05  Score=69.75  Aligned_cols=33  Identities=21%  Similarity=0.308  Sum_probs=29.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +-++|.||||+||||+++++|..++.+++.++.
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            568999999999999999999999988887553

>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=97.71  E-value=9e-05  Score=72.77  Aligned_cols=115  Identities=12%  Similarity=0.131  Sum_probs=72.9

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CC-CeEEecccCcCChHHHHHHHHHhhhc--------------cc-chhhH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NY-DVYDLELTSVENNNELRSLLVDISSK--------------KK-KSNVT  286 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~-~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~-~~~~~  286 (431)
                      .+..||||||+|+||++.++++++.+   +. +...+...   ...++++++..+...              +. -+...
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~~   93 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID---PNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAI   93 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC---TTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTTH
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec---CCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCChHH
Confidence            35689999999999999999998865   32 21222221   123455555443322              22 34566


Q ss_pred             HHHHHHHhcCcccCCCCceEEEEecCCC------CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          287 LSGLLNCIGGLWSTCGGERIIVFTTNHV------DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       287 ~s~lL~~ldg~~~~~~~~~ivI~TTN~~------~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      .+.|+..+...    .+..++|++|+.+      ..+.+++...|   ..+++..++..+....++..+.
T Consensus        94 ~~aLl~~le~p----~~~~~~il~~~~~~~~~~~~k~~~~i~sr~---~~~~~~~l~~~~l~~~l~~~~~  156 (343)
T 1jr3_D           94 NEQLLTLTGLL----HDDLLLIVRGNKLSKAQENAAWFTALANRS---VQVTCQTPEQAQLPRWVAARAK  156 (343)
T ss_dssp             HHHHHHHHTTC----BTTEEEEEEESCCCTTTTTSHHHHHHTTTC---EEEEECCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC----CCCeEEEEEcCCCChhhHhhHHHHHHHhCc---eEEEeeCCCHHHHHHHHHHHHH
Confidence            78888888854    2335666555543      34667887744   5788888888777766666653

>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=97.66  E-value=6.2e-05  Score=77.12  Aligned_cols=131  Identities=13%  Similarity=0.024  Sum_probs=74.8

Q ss_pred             cccChhhHHHHHHHHHHHHhC-HHHHHHhCCCCCceeEEeCCCCCcHHHHHHHH-HHHcCCCeEEecccCcCChHHHH--
Q 035603          195 LAMASKKKEAIKKDLIKFTEG-KEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAM-ANCLNYDVYDLELTSVENNNELR--  270 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~-~~~~~~~g~~~~rg~LL~GPPGtGKTsla~ai-A~~l~~~i~~l~~~~~~~~~~l~--  270 (431)
                      |.|.+++|..|.-.+   ... +.      ....-.+||.|+||| ||++++++ ++.+...++......  +...|-  
T Consensus       215 I~G~e~vK~aLll~L---~GG~~k------~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~s--s~~gLt~s  282 (506)
T 3f8t_A          215 LPGAEEVGKMLALQL---FSCVGK------NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRT--ELTDLTAV  282 (506)
T ss_dssp             STTCHHHHHHHHHHH---TTCCSS------GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGC--CHHHHSEE
T ss_pred             cCCCHHHHHHHHHHH---cCCccc------cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCC--CccCceEE
Confidence            688888877764322   221 11      111225999999999 99999999 777655444322111  111110  


Q ss_pred             -----------HHHHHhhhc-------ccchhhHHHHHHHHhcCcc-c----CCCCceEEEEecCCCC-----------C
Q 035603          271 -----------SLLVDISSK-------KKKSNVTLSGLLNCIGGLW-S----TCGGERIIVFTTNHVD-----------K  316 (431)
Q Consensus       271 -----------~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~-~----~~~~~~ivI~TTN~~~-----------~  316 (431)
                                 ..+..+.+.       +.....+.+.|+..|..-. +    .-.....||+|+|..+           .
T Consensus       283 ~r~~tG~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~  362 (506)
T 3f8t_A          283 LKEDRGWALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARID  362 (506)
T ss_dssp             EEESSSEEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCC
T ss_pred             EEcCCCcccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccC
Confidence                       001111111       3445667788888875210 0    1123478999999876           8


Q ss_pred             CChhhhccCceeEEE-EcCCCCHH
Q 035603          317 LDPALIRRGRMDKHI-EMPYCCFE  339 (431)
Q Consensus       317 Ld~AllRpGRfd~~I-~~~~p~~~  339 (431)
                      |+++++.  |||..+ .+++|+.+
T Consensus       363 Lp~alLD--RFDLi~i~~d~pd~e  384 (506)
T 3f8t_A          363 LDQDFLS--HFDLIAFLGVDPRPG  384 (506)
T ss_dssp             SCHHHHT--TCSEEEETTC-----
T ss_pred             CChHHhh--heeeEEEecCCCChh
Confidence            9999999  998865 46777644

>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=97.65  E-value=2.9e-05  Score=67.78  Aligned_cols=31  Identities=29%  Similarity=0.288  Sum_probs=28.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      -++|.||||+||||+++.+|..+++.+++.+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            4789999999999999999999999887765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.64  E-value=2.4e-05  Score=69.08  Aligned_cols=31  Identities=32%  Similarity=0.461  Sum_probs=28.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .++|.|||||||||++++||..+++++++.+
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            5889999999999999999999999888754

>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=97.63  E-value=3.1e-05  Score=68.85  Aligned_cols=32  Identities=34%  Similarity=0.558  Sum_probs=29.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -++|.|+||+|||++++.+|..+|+++++.+.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~D~   35 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTDV   35 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeCch
Confidence            48999999999999999999999999887653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.62  E-value=3e-05  Score=67.90  Aligned_cols=33  Identities=27%  Similarity=0.519  Sum_probs=29.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ..++|.|+|||||||+++.+|..+|+++++.+.
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~D~   40 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDTDM   40 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEChH
Confidence            468999999999999999999999999988653

>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=97.62  E-value=3.4e-05  Score=69.01  Aligned_cols=33  Identities=27%  Similarity=0.461  Sum_probs=29.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH-cCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC-LNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~-l~~~i~~l~  259 (431)
                      +.-++|.||||||||++++.+|.. +|+++++++
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            456899999999999999999999 798888765

>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=97.62  E-value=3.4e-05  Score=68.37  Aligned_cols=33  Identities=27%  Similarity=0.391  Sum_probs=29.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++.++|.||||+|||++++++|..+++.++..+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d   43 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYINVG   43 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHH
Confidence            456999999999999999999999998887653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.59  E-value=3.7e-05  Score=67.43  Aligned_cols=31  Identities=45%  Similarity=0.704  Sum_probs=27.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-+.|.|||||||||+++.||..++..+++.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id~   35 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   35 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            4689999999999999999999999877654

>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=97.53  E-value=5.6e-05  Score=68.25  Aligned_cols=33  Identities=33%  Similarity=0.495  Sum_probs=29.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-++|.||||+||||+++.||..++++++.++
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~d   52 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQISTG   52 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            345889999999999999999999999888763

>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=97.52  E-value=4.5e-05  Score=66.82  Aligned_cols=32  Identities=25%  Similarity=0.488  Sum_probs=28.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +-++|.|+||+|||++++.+|..+|+++++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~d   34 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEccc
Confidence            35899999999999999999999999888754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.51  E-value=0.00011  Score=70.79  Aligned_cols=35  Identities=26%  Similarity=0.392  Sum_probs=28.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+.-++|.||||+||||++++++..++..++.++.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            35668899999999999999999998544555554

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.50  E-value=5.3e-05  Score=67.42  Aligned_cols=33  Identities=24%  Similarity=0.367  Sum_probs=28.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-++|.|||||||||+++.+|..+++++++.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~d   35 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLSAG   35 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEeHH
Confidence            346889999999999999999999998877653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.49  E-value=6e-05  Score=71.19  Aligned_cols=32  Identities=28%  Similarity=0.464  Sum_probs=29.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -++|.||||||||+++++||..+++.++..|.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            47899999999999999999999999988765

>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=97.49  E-value=5.3e-05  Score=65.86  Aligned_cols=29  Identities=28%  Similarity=0.361  Sum_probs=26.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.||||+||||+++.+ ..+|++++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            5789999999999999999 9999988765

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.46  E-value=6.8e-05  Score=65.36  Aligned_cols=31  Identities=32%  Similarity=0.458  Sum_probs=28.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      -++|.|+||+||||+++.+|..+++++++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d   32 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDVD   32 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            3789999999999999999999999888754

>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=97.46  E-value=6.7e-05  Score=66.59  Aligned_cols=33  Identities=21%  Similarity=0.348  Sum_probs=29.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++-++|.|||||||||+++.+|..+++.+++.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   38 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLSAG   38 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEeeHH
Confidence            456899999999999999999999998887763

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.45  E-value=5.4e-05  Score=67.20  Aligned_cols=32  Identities=28%  Similarity=0.601  Sum_probs=27.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .-++|.|||||||||+++.+|..+|+.+++.+
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~d   36 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLSTG   36 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecHH
Confidence            35889999999999999999999998777653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.45  E-value=6.8e-05  Score=66.96  Aligned_cols=33  Identities=21%  Similarity=0.356  Sum_probs=29.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-++|.|||||||||+++.+|..+++++++.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~d   41 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTG   41 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            356899999999999999999999999887664

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.43  E-value=4.9e-05  Score=66.83  Aligned_cols=30  Identities=27%  Similarity=0.345  Sum_probs=24.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH-HcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN-CLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~-~l~~~i~~  257 (431)
                      .-++|.||||+||||+++.++. .+++.++.
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            4689999999999999999999 56655443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.42  E-value=7.2e-05  Score=69.02  Aligned_cols=32  Identities=19%  Similarity=0.380  Sum_probs=28.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +.-++|.||||+||||+++.||..+++.+++.
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            45689999999999999999999999887765

>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=97.41  E-value=8.5e-05  Score=67.78  Aligned_cols=30  Identities=23%  Similarity=0.318  Sum_probs=27.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++|.||||+||||+++.+|..+++.++..+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~d   32 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPHISTG   32 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeHH
Confidence            789999999999999999999998887663

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.41  E-value=7.3e-05  Score=66.90  Aligned_cols=33  Identities=18%  Similarity=0.348  Sum_probs=29.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-++|.||||+||||+++.+|..+++.+++.+
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d   44 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLSTG   44 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            456899999999999999999999998877654

>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=97.41  E-value=6.9e-05  Score=66.50  Aligned_cols=30  Identities=23%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC-----CCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN-----YDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~-----~~i~~  257 (431)
                      .-++|.||||+||||+++.||..++     ++++.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~   38 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVS   38 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEe
Confidence            4688999999999999999999988     66664

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=97.41  E-value=4.8e-05  Score=58.53  Aligned_cols=69  Identities=12%  Similarity=-0.087  Sum_probs=46.3

Q ss_pred             CCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHHHHHHHHHHHH
Q 035603          334 PYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLKNLIEALKAAK  402 (431)
Q Consensus       334 ~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~~l~~~l~~~~  402 (431)
                      |+|+.++|++|++.++.........++..++.. .|||+|||..+|..+.    ..+......++|..++++..
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~~~i~~~d~~~Al~~v~   74 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM   74 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEECTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            689999999999999976543323346666664 4999999998876411    11222345566777766554

>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=97.40  E-value=8.7e-05  Score=66.12  Aligned_cols=37  Identities=32%  Similarity=0.332  Sum_probs=30.0

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++.+.-+.|.||||+||||++++||+.++...+.++.
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            4455678999999999999999999987776655553

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.38  E-value=9.3e-05  Score=67.45  Aligned_cols=30  Identities=23%  Similarity=0.351  Sum_probs=27.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++|.||||+||||+++.+|..+|+.++..+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~d   32 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPHISTG   32 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEeeHH
Confidence            789999999999999999999998887653

>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=97.37  E-value=9.6e-05  Score=67.77  Aligned_cols=31  Identities=26%  Similarity=0.447  Sum_probs=28.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-++|.||||+||||+++.||..+++.++..
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            4688999999999999999999999887765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.37  E-value=7.8e-05  Score=68.42  Aligned_cols=31  Identities=23%  Similarity=0.398  Sum_probs=28.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-++|.||||+||||+++.||..++++++..
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            4588999999999999999999999888876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.36  E-value=0.00015  Score=68.37  Aligned_cols=39  Identities=21%  Similarity=0.189  Sum_probs=30.9

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ..+.-++|.||||+||||+++.|+..++...+.++...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            335668999999999999999999999866565555443

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.35  E-value=0.00012  Score=65.98  Aligned_cols=32  Identities=19%  Similarity=0.332  Sum_probs=28.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +-++|.|||||||||+++.+|..+|+.+++.+
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            45889999999999999999999998887764

>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=97.34  E-value=0.00014  Score=64.04  Aligned_cols=33  Identities=30%  Similarity=0.489  Sum_probs=28.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-++|.||||+||||+++.++..+|..+++.+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~~d   40 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   40 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEeCc
Confidence            345889999999999999999999987766543

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.33  E-value=9.8e-05  Score=65.22  Aligned_cols=30  Identities=20%  Similarity=0.210  Sum_probs=23.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +.-++|.|+||+||||+++.+|..++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            346889999999999999999999999877

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.32  E-value=8.4e-05  Score=68.24  Aligned_cols=32  Identities=16%  Similarity=0.215  Sum_probs=27.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +.-++|.||||+||||+++.||..+++.++++
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   36 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHISA   36 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECCH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            45689999999999999999999999766554

>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=97.31  E-value=0.00012  Score=67.82  Aligned_cols=31  Identities=29%  Similarity=0.419  Sum_probs=28.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-++|.|||||||||+++.||..+++.++..
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            4689999999999999999999999887765

>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=97.25  E-value=0.00014  Score=66.44  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=26.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||+||||+++.||..+|+.++..
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            78999999999999999999999888775

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.24  E-value=0.0002  Score=64.68  Aligned_cols=31  Identities=23%  Similarity=0.448  Sum_probs=26.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.-+.|.||||+||||++++||+.+|..+++
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            4568899999999999999999999876554

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.24  E-value=0.00018  Score=66.51  Aligned_cols=32  Identities=22%  Similarity=0.451  Sum_probs=27.8

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      ..++-++|.||||+||+|.|+.||..+|+..+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            44577889999999999999999999987654

>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=97.23  E-value=0.00024  Score=62.85  Aligned_cols=34  Identities=29%  Similarity=0.385  Sum_probs=29.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +.-+.|.|++|+||||+++.++..+   |++++.++.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~   41 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   41 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECC
Confidence            3457899999999999999999998   999887763

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.22  E-value=0.00023  Score=63.25  Aligned_cols=31  Identities=26%  Similarity=0.245  Sum_probs=28.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +.|.|+||+||||+++.+|..+   |++++..+.
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            6899999999999999999988   899888764

>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=97.21  E-value=0.00018  Score=67.32  Aligned_cols=34  Identities=24%  Similarity=0.390  Sum_probs=29.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .+.-++|.||||+||||+++.|+..+++.++..+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~~   61 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLSTG   61 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEecH
Confidence            3456899999999999999999999998877653

>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=97.17  E-value=0.00058  Score=61.84  Aligned_cols=50  Identities=18%  Similarity=0.117  Sum_probs=37.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSL  272 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l  272 (431)
                      |++.+.-++|+||||+|||+|+..+|...+..++.++...-.....+..+
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~~~~~~~~~~~   65 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEGGFSPERLVQM   65 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSCCCCHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCCCCCHHHHHHH
Confidence            57777789999999999999999999866667777766542234444443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.17  E-value=0.00023  Score=69.72  Aligned_cols=34  Identities=24%  Similarity=0.525  Sum_probs=30.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++.++|.||||||||+++.++|..++..++.+|.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds   38 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVDS   38 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEECT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEeccc
Confidence            3578999999999999999999999998888764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.16  E-value=0.0002  Score=66.06  Aligned_cols=29  Identities=28%  Similarity=0.453  Sum_probs=26.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||+||||+++.||..+++.++..
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            78999999999999999999999877665

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.15  E-value=7.1e-05  Score=74.19  Aligned_cols=50  Identities=24%  Similarity=0.363  Sum_probs=36.8

Q ss_pred             hhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          199 SKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.+.+.+.+.+...+..       |  ....++|.||||+|||+++++||+.++++++.
T Consensus         5 ~~L~~~il~~l~~~i~~-------g--~~~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIED-------N--YRVCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             HHHHHHHHHHHHHTTTT-------C--SCEEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-------C--CeeEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            45666666655544432       1  12468999999999999999999999988854

>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=97.13  E-value=0.00021  Score=64.48  Aligned_cols=31  Identities=32%  Similarity=0.304  Sum_probs=27.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      -+.|.|||||||||+++.||+ +|+++++.+.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d~   33 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDADK   33 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEccH
Confidence            478999999999999999999 9988887653

>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=97.12  E-value=0.00027  Score=64.78  Aligned_cols=28  Identities=29%  Similarity=0.548  Sum_probs=25.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ++|.||||+||+|.|+.||..+|++.+.
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~is   30 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVHIS   30 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            6889999999999999999999876553

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.10  E-value=0.00055  Score=61.60  Aligned_cols=45  Identities=18%  Similarity=0.295  Sum_probs=32.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC--eEEecccCcCChHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD--VYDLELTSVENNNELRSLLVD  275 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~--i~~l~~~~~~~~~~l~~l~~~  275 (431)
                      .-++|.||||+||||+++.||..++..  ++.....   ....+++++..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~---~~~~i~~~~~~   51 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELKRDVYLTEWN---SSDWIHDIIKE   51 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTTSCEEEEETT---CCCHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhcCCEEEecCC---cHHHHHHHHhc
Confidence            457899999999999999999998873  5443322   22346666544

>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=97.09  E-value=0.00035  Score=65.20  Aligned_cols=31  Identities=26%  Similarity=0.506  Sum_probs=27.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.-+.|.||||+||||++++||..+|+..+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            4578999999999999999999999876554

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.08  E-value=0.00017  Score=63.98  Aligned_cols=24  Identities=38%  Similarity=0.559  Sum_probs=22.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -++|.||||+||||+++.||..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999999886

>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=97.08  E-value=0.0003  Score=63.25  Aligned_cols=31  Identities=23%  Similarity=0.264  Sum_probs=28.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      -+.|.||||+|||++++.+|..+|+++++.+
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            5789999999999999999999999988764

>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=97.08  E-value=0.00033  Score=62.85  Aligned_cols=34  Identities=15%  Similarity=0.178  Sum_probs=29.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-NYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~~~  261 (431)
                      .-+.|.||||+||||+++.+|..+ |++++.++..
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~~~   39 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESIPANTIKYLNFP   39 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEESS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEecC
Confidence            458899999999999999999999 6888776543

>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=97.08  E-value=0.00026  Score=63.97  Aligned_cols=30  Identities=27%  Similarity=0.337  Sum_probs=26.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      -+.|.|||||||||+++.+|+ +|+++++.+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id~d   33 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVDAD   33 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccchH
Confidence            477999999999999999998 898888754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.07  E-value=0.00029  Score=66.53  Aligned_cols=34  Identities=35%  Similarity=0.555  Sum_probs=30.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ...+.|.||||+||||+++.||..+|+++++.+.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d~   81 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDCDT   81 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeCcH
Confidence            3579999999999999999999999999888653

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.06  E-value=0.00031  Score=62.88  Aligned_cols=29  Identities=34%  Similarity=0.709  Sum_probs=25.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      -+.|.|||||||||+++.||..++..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            37899999999999999999999986653

>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=97.05  E-value=0.00034  Score=64.03  Aligned_cols=31  Identities=35%  Similarity=0.560  Sum_probs=27.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-+.|.|||||||||+++.||+.+|+++++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d~   36 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLDS   36 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcccC
Confidence            3588999999999999999999999877764

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.02  E-value=0.01  Score=62.27  Aligned_cols=64  Identities=20%  Similarity=0.121  Sum_probs=40.9

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH-------cCCCeEEeccc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC-------LNYDVYDLELT  261 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~-------l~~~i~~l~~~  261 (431)
                      |.....++|-+...+.|.+.+.    ..       ....+-++++||+|+|||+||..+++.       +...++.++.+
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~----~~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~  188 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLS----KL-------KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG  188 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHT----TS-------TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEE
T ss_pred             CCCCCeecccHHHHHHHHHHHh----cc-------cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECC
Confidence            3334567887777766655432    10       123467899999999999999998642       22245666655


Q ss_pred             Cc
Q 035603          262 SV  263 (431)
Q Consensus       262 ~~  263 (431)
                      ..
T Consensus       189 ~~  190 (591)
T 1z6t_A          189 KQ  190 (591)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

>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=97.01  E-value=0.00081  Score=61.87  Aligned_cols=50  Identities=18%  Similarity=0.159  Sum_probs=35.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH--c-------CCCeEEecccCcCChHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC--L-------NYDVYDLELTSVENNNELRSL  272 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~--l-------~~~i~~l~~~~~~~~~~l~~l  272 (431)
                      |++...-++|+||||+|||+|+..+|..  +       +..++.++.........+...
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~   78 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAV   78 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHH
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHH
Confidence            5677778999999999999999999985  3       345666665543233334433

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=97.01  E-value=0.00021  Score=56.21  Aligned_cols=70  Identities=10%  Similarity=-0.116  Sum_probs=45.0

Q ss_pred             EcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcccC----CCCCHHHHHHHHHHHHHHH
Q 035603          332 EMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMPKS----DEDDAGTCLKNLIEALKAA  401 (431)
Q Consensus       332 ~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~~~----~~~~~~~~l~~l~~~l~~~  401 (431)
                      +-++|+.++|++|++.++.........++..+++.+ |||+|||.++|..+.    ......+..++|..++++.
T Consensus         7 ~~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~~~~I~~~df~~Al~~v   81 (86)
T 2krk_A            7 HHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKV   81 (86)
T ss_dssp             CCCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            347899999999999999754433233456666644 999999998876421    1111223445566665544

>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=97.00  E-value=0.00049  Score=65.00  Aligned_cols=32  Identities=41%  Similarity=0.445  Sum_probs=27.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~  259 (431)
                      .-++|.|+||+||||+++.+|..   +|+.++.++
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~   39 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG   39 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEEC
Confidence            45889999999999999999998   788877444

>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=97.00  E-value=0.00036  Score=63.18  Aligned_cols=33  Identities=27%  Similarity=0.254  Sum_probs=28.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .-+.|.|++||||||+++.+|..+|+++++.|.
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~D~   45 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNVDR   45 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEECcH
Confidence            346799999999999999999999999888653

>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=96.96  E-value=0.00052  Score=64.13  Aligned_cols=32  Identities=31%  Similarity=0.382  Sum_probs=28.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +.-+.|.||||+||||+++.||..+++.+++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d~   40 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLDT   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcccC
Confidence            34688999999999999999999999887764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.95  E-value=0.00064  Score=80.47  Aligned_cols=39  Identities=18%  Similarity=0.281  Sum_probs=30.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |++.+++++||||||||||+||.++|.+.   |..+..++..
T Consensus      1423 Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e 1464 (2050)
T 3cmu_A         1423 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE 1464 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcc
Confidence            47888999999999999999999998764   4445555444

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.94  E-value=0.0007  Score=61.06  Aligned_cols=34  Identities=29%  Similarity=0.311  Sum_probs=26.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      .+.-+.|.||+||||||++++||..+   |...+.++
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d   60 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILD   60 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEec
Confidence            34567899999999999999999998   54433443

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.92  E-value=0.0005  Score=61.53  Aligned_cols=32  Identities=34%  Similarity=0.419  Sum_probs=28.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-+.|.|||||||||+++.+|.. |+++++.+
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~id~d   39 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVLDLD   39 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEEccc
Confidence            346889999999999999999998 98888765

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.90  E-value=0.00027  Score=63.90  Aligned_cols=32  Identities=19%  Similarity=0.209  Sum_probs=26.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      +.-+.|.|+|||||||+++.+|..++...+.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            45688999999999999999999876554433

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.90  E-value=0.0012  Score=60.19  Aligned_cols=30  Identities=23%  Similarity=0.330  Sum_probs=25.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      |++...-+.|.||+|+|||+|++.||..+-
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            566667789999999999999999998543

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.88  E-value=0.00081  Score=66.76  Aligned_cols=42  Identities=17%  Similarity=0.098  Sum_probs=33.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVE  264 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~  264 (431)
                      |++..+-++|+||||+|||+|+..+|..+   +..++.++.....
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~  101 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHAL  101 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCC
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccccc
Confidence            56767778999999999999999998764   5567677665543

>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=96.88  E-value=0.0012  Score=67.67  Aligned_cols=54  Identities=30%  Similarity=0.401  Sum_probs=34.7

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +-..|.+|++|  .+++++.+.. +..++...          ...+|+.||||||||+++.+++..+
T Consensus        16 ~~~~p~~~~~L--n~~Q~~av~~-~~~~i~~~----------~~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           16 PRGSHMTFDDL--TEGQKNAFNI-VMKAIKEK----------KHHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             -----CCSSCC--CHHHHHHHHH-HHHHHHSS----------SCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccCCCccccC--CHHHHHHHHH-HHHHHhcC----------CCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45567788875  5566665543 33333321          2378999999999999999999876

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.87  E-value=0.0006  Score=62.09  Aligned_cols=32  Identities=31%  Similarity=0.310  Sum_probs=28.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .-+.|.||||||||++++.+|..+|+++++.+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~d   35 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDTG   35 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecCC
Confidence            45889999999999999999999999888764

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.87  E-value=0.0011  Score=64.62  Aligned_cols=51  Identities=12%  Similarity=0.174  Sum_probs=38.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++++||||+|||+++..+|...         +..++.++.........+....
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~  162 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMA  162 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHH
Confidence            67777789999999999999999999875         4566777666533355555543

>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=96.83  E-value=0.013  Score=66.27  Aligned_cols=172  Identities=16%  Similarity=0.183  Sum_probs=87.1

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH-------cCCCeEEecc
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC-------LNYDVYDLEL  260 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~-------l~~~i~~l~~  260 (431)
                      .|.....++|-++..++|.+.+...           -...+-+.|+|++|+|||+||+.+++.       ....++.++.
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~  187 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI  187 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEEC
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEE
Confidence            4555567888887777776654211           122456889999999999999998865       2223556666


Q ss_pred             cCcCChH---HHHHHHHHhhhc-------ccchhhHHHHHHH-----------HhcCcccC-----CCCceEEEEecCCC
Q 035603          261 TSVENNN---ELRSLLVDISSK-------KKKSNVTLSGLLN-----------CIGGLWST-----CGGERIIVFTTNHV  314 (431)
Q Consensus       261 ~~~~~~~---~l~~l~~~~~~~-------~~~~~~~~s~lL~-----------~ldg~~~~-----~~~~~ivI~TTN~~  314 (431)
                      +......   .+..+.......       ..........|..           .+|.++..     -+.+.-||.||..+
T Consensus       188 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~~~~~~ilvTtR~~  267 (1249)
T 3sfz_A          188 GKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDK  267 (1249)
T ss_dssp             CSCCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTTCSSCEEEEEESST
T ss_pred             CCcCchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhhcCCCEEEEEcCCH
Confidence            5532211   122222221111       0111112222221           22333211     12235677777755


Q ss_pred             CCCChhhhccCceeEEEEcCC-CCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHH
Q 035603          315 DKLDPALIRRGRMDKHIEMPY-CCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADV  374 (431)
Q Consensus       315 ~~Ld~AllRpGRfd~~I~~~~-p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI  374 (431)
                      ...... .   .....+.++. .+.++-.+++..+.........+...++++..+-.|--|
T Consensus       268 ~~~~~~-~---~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glPLal  324 (1249)
T 3sfz_A          268 SVTDSV-M---GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVV  324 (1249)
T ss_dssp             TTTTTC-C---SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCHHHH
T ss_pred             HHHHhh-c---CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCHHHH
Confidence            333211 1   2335577775 777777788877654332222233444555444445444

>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=96.81  E-value=0.00067  Score=61.86  Aligned_cols=31  Identities=39%  Similarity=0.454  Sum_probs=27.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .-+.|.|++|+||||+++.+|. +|+++++.+
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~-lg~~~id~D   35 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD-LGINVIDAD   35 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH-TTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-cCCEEEEcc
Confidence            4578999999999999999998 898888764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.79  E-value=0.00081  Score=62.33  Aligned_cols=33  Identities=24%  Similarity=0.356  Sum_probs=28.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.-+.|.||||||||++++.+|..+|+++++.+
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d~d   48 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLDTG   48 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceecCC
Confidence            345789999999999999999999998887753

>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=96.77  E-value=0.00055  Score=65.63  Aligned_cols=31  Identities=26%  Similarity=0.292  Sum_probs=25.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-NYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l  258 (431)
                      +-++|.||||+||||+++.++..+ ++.++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i~~   34 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNINR   34 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEecc
Confidence            468999999999999999999974 6655543

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.75  E-value=0.0021  Score=63.26  Aligned_cols=51  Identities=16%  Similarity=0.131  Sum_probs=37.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSLL  273 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l~  273 (431)
                      |++...-++|+||||+|||+|+..+|...         +..++.++.........+....
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~  177 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIA  177 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHH
Confidence            67777778999999999999999999863         4566667665533445555443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.74  E-value=0.00095  Score=60.36  Aligned_cols=29  Identities=28%  Similarity=0.425  Sum_probs=25.2

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...++-++|.||||+||||+++.|+..++
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            34456789999999999999999999885

>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=96.74  E-value=0.00086  Score=59.81  Aligned_cols=27  Identities=26%  Similarity=0.546  Sum_probs=23.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      -+.|.||+|+|||||++.|++.++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            368999999999999999999987544

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.73  E-value=0.00044  Score=62.52  Aligned_cols=27  Identities=26%  Similarity=0.172  Sum_probs=23.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +.-+.|.|||||||||+++.+|..++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            356889999999999999999998653

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.73  E-value=0.00067  Score=61.32  Aligned_cols=32  Identities=22%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-~~~i~~l~  259 (431)
                      .-+.|.||||+||||+++.|++.+ ++.++..+
T Consensus        22 ~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~D   54 (207)
T 2qt1_A           22 FIIGISGVTNSGKTTLAKNLQKHLPNCSVISQD   54 (207)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSTTEEEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCcEEEeCC
Confidence            446799999999999999999988 67666655

>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=96.72  E-value=0.001  Score=62.42  Aligned_cols=28  Identities=21%  Similarity=0.186  Sum_probs=25.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +.-+.|.|||||||||+++.||..++++
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            3468899999999999999999999987

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.70  E-value=0.00072  Score=61.53  Aligned_cols=38  Identities=21%  Similarity=0.098  Sum_probs=29.3

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      |++.+..++|.||||+|||+|++.+|..+   +..++.++.
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~   59 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTT   59 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEES
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEc
Confidence            45666678999999999999999999654   445555544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.70  E-value=0.0012  Score=61.97  Aligned_cols=30  Identities=37%  Similarity=0.596  Sum_probs=27.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .-+.|.||+||||||+++.||..+|+.+++
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            457899999999999999999999987775

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.69  E-value=0.00086  Score=65.95  Aligned_cols=35  Identities=26%  Similarity=0.419  Sum_probs=30.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      +-++|.||+|+|||+|+..||..++..|++.|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~q   75 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQ   75 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSST
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCCCcEEcccccc
Confidence            46889999999999999999999999888877653

>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=96.68  E-value=0.0011  Score=64.37  Aligned_cols=36  Identities=17%  Similarity=0.458  Sum_probs=30.9

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      .++-+++.||+|+|||+|+..+|..++..++..|..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   44 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILPVELISVDSA   44 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCTT
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCCCcEEecccc
Confidence            345788999999999999999999999888777653

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.67  E-value=0.0011  Score=58.79  Aligned_cols=25  Identities=40%  Similarity=0.627  Sum_probs=22.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -+.|.||||+||||+++.|+..++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            4789999999999999999987654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.64  E-value=0.0017  Score=57.55  Aligned_cols=26  Identities=35%  Similarity=0.505  Sum_probs=23.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-++|.|+||+||||+++.+|..++
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45678999999999999999999874

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.63  E-value=0.00075  Score=68.38  Aligned_cols=34  Identities=26%  Similarity=0.287  Sum_probs=28.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .+.-++|.||||+||||+++.++..+++.++..+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~~~i~~D  290 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRD  290 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTCEECCGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCcEEEccc
Confidence            3566889999999999999999999987665543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.61  E-value=0.0014  Score=58.17  Aligned_cols=26  Identities=15%  Similarity=0.397  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++-+.|.||+|+|||||+++|++.+.
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45688999999999999999999764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.60  E-value=0.0012  Score=59.29  Aligned_cols=26  Identities=27%  Similarity=0.243  Sum_probs=23.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .+.-+.|.||||+||||+++.|+..+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            44568899999999999999999987

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.57  E-value=0.0011  Score=63.52  Aligned_cols=31  Identities=26%  Similarity=0.281  Sum_probs=27.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .-+.|.|||||||||+++.++ .+|+++++.+
T Consensus        76 ~iI~I~G~~GSGKSTva~~La-~lg~~~id~D  106 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLK-NLGAYIIDSD  106 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HHTCEEEEHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCcEEehh
Confidence            458899999999999999999 6898887764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.56  E-value=0.0013  Score=59.90  Aligned_cols=30  Identities=17%  Similarity=0.145  Sum_probs=28.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .-+.|.||+|||||++++.+|..||+++++
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            357899999999999999999999999997

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.55  E-value=0.0016  Score=59.07  Aligned_cols=34  Identities=26%  Similarity=0.342  Sum_probs=27.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC----CCeEEec
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN----YDVYDLE  259 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~----~~i~~l~  259 (431)
                      .+.-++|.||||+||||+++.|+..++    .+++.++
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~   61 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   61 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEEC
Confidence            345688999999999999999999775    4566555

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.52  E-value=0.0024  Score=63.08  Aligned_cols=51  Identities=18%  Similarity=0.207  Sum_probs=35.7

Q ss_pred             hCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEecccCcCChHHHHHH
Q 035603          222 IGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELTSVENNNELRSL  272 (431)
Q Consensus       222 ~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~l~~l  272 (431)
                      .|++...-+.|+||||+|||+|++.+|....         -.++.++.........+..+
T Consensus       126 ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i  185 (349)
T 1pzn_A          126 GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREI  185 (349)
T ss_dssp             SSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHHHHH
Confidence            3677777899999999999999999999872         24455655443223344433

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.51  E-value=0.0042  Score=55.99  Aligned_cols=34  Identities=18%  Similarity=0.248  Sum_probs=27.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +.-+.|.||+|+||||+++.|+..+   +.+++.++.
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~   58 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEecc
Confidence            4457899999999999999999876   666666543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.49  E-value=0.0012  Score=60.05  Aligned_cols=35  Identities=20%  Similarity=0.237  Sum_probs=29.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      .++++|.||+|+|||++|..+|...+ .++..|...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdDs~~   68 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADDRVD   68 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESSEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecchhh
Confidence            47899999999999999999999876 666655443

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.48  E-value=0.0021  Score=64.02  Aligned_cols=40  Identities=20%  Similarity=0.234  Sum_probs=32.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      |++..+-++|+||||+|||+|+..+|..+   +.+++.++...
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~  112 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEH  112 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCC
Confidence            56777789999999999999999888754   56777777654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.48  E-value=0.0014  Score=64.51  Aligned_cols=34  Identities=18%  Similarity=0.287  Sum_probs=29.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      +-+++.||+|+|||+++..||..++..++..|.-
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~Ds~   41 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGDSM   41 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECCSS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceeccccc
Confidence            4688999999999999999999999777776644

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.46  E-value=0.0019  Score=59.44  Aligned_cols=40  Identities=25%  Similarity=0.252  Sum_probs=30.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |++.+.-++|+||||+|||+++..+|..   .+..++.++...
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            5666777899999999999998888754   355666666543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.46  E-value=0.0017  Score=59.08  Aligned_cols=27  Identities=30%  Similarity=0.294  Sum_probs=23.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++-+.|.||+|+||||+++.|+..+..
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            456889999999999999999998753

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.38  E-value=0.0024  Score=63.42  Aligned_cols=38  Identities=18%  Similarity=0.289  Sum_probs=30.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      |++..+-++|+||||+|||+||..+|..+   +..++.++.
T Consensus        59 Gl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~   99 (356)
T 1u94_A           59 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA   99 (356)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            57777889999999999999999988753   556666665

>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=96.37  E-value=0.0019  Score=62.97  Aligned_cols=34  Identities=24%  Similarity=0.307  Sum_probs=28.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      +-+++.||+|+|||+|+..+|..++..++..|..
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   37 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSM   37 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTTEEEEECCGG
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCccceeecCcc
Confidence            4578899999999999999999998877766543

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.36  E-value=0.0032  Score=61.11  Aligned_cols=28  Identities=18%  Similarity=0.165  Sum_probs=24.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      |++...-++++||||+|||+++..+|..
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            5677777899999999999999999875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.34  E-value=0.0033  Score=56.98  Aligned_cols=26  Identities=38%  Similarity=0.604  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||+|+|||||+++|++.+.
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44567999999999999999999885

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.33  E-value=0.0024  Score=57.18  Aligned_cols=26  Identities=23%  Similarity=0.609  Sum_probs=22.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||+|+||||+++.|++.+.
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            34578999999999999999999864

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.32  E-value=0.0044  Score=66.26  Aligned_cols=58  Identities=29%  Similarity=0.391  Sum_probs=35.6

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEeccc
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELT  261 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~  261 (431)
                      |..|-+=.+++.+++.|...+.    .           +.-.|++||||||||+++..+...   -+..+..+..+
T Consensus       182 ~~~~~~~~LN~~Q~~AV~~al~----~-----------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~T  242 (646)
T 4b3f_X          182 PLTFFNTCLDTSQKEAVLFALS----Q-----------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPS  242 (646)
T ss_dssp             CCCCSSTTCCHHHHHHHHHHHH----C-----------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             cccccCCCCCHHHHHHHHHHhc----C-----------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCc
Confidence            3344444578888887765431    1           124689999999999866555433   24555555444

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.31  E-value=0.0024  Score=63.13  Aligned_cols=39  Identities=18%  Similarity=0.193  Sum_probs=30.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |++..+-++|+||||+|||+|+..+|..+   +..++.++..
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E   98 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAE   98 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            56777779999999999999999988653   4555555543

>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=96.24  E-value=0.003  Score=56.85  Aligned_cols=28  Identities=32%  Similarity=0.492  Sum_probs=23.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      |.++|.||+|+|||||++.+.....-.+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            5689999999999999999988765433

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.23  E-value=0.003  Score=61.18  Aligned_cols=53  Identities=23%  Similarity=0.329  Sum_probs=35.2

Q ss_pred             hhhHHHHHHHHHHHHhCHHHHHHhC--CCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          199 SKKKEAIKKDLIKFTEGKEYYAKIG--KAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~~~~~~g--~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.+++.+.+.+...+........+.  +..+.-+.|.||+|+||||+++.||+.+
T Consensus        70 ~~~~~~~~~~l~~~l~~~~~~~~l~~~~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           70 SEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             HHHHHHHHHHHHHHHCC--CCCSCCCCSSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcccccccccccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4566667777766665422001122  3344567899999999999999999976

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.21  E-value=0.0035  Score=57.62  Aligned_cols=39  Identities=28%  Similarity=0.198  Sum_probs=29.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH----cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC----LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~----l~~~i~~l~~~  261 (431)
                      |++...-++++|+||+|||+++..+|..    .+.+++.++..
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            5677777999999999999999876542    35666666544

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.21  E-value=0.0023  Score=57.83  Aligned_cols=32  Identities=22%  Similarity=0.299  Sum_probs=26.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN--YDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l~  259 (431)
                      .-+.|.||+|+||||+++.|++.++  +.++..+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~~~~~i~~v~~d   40 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALARTLGERVALLPMD   40 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHGGGEEEEEGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCeEEEecC
Confidence            4577999999999999999999988  5555544

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.19  E-value=0.0019  Score=61.31  Aligned_cols=29  Identities=24%  Similarity=0.240  Sum_probs=24.3

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |++...-++|+||||+|||+|+..+|..+
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            45556678999999999999999998754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.18  E-value=0.0022  Score=59.68  Aligned_cols=115  Identities=13%  Similarity=0.115  Sum_probs=61.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc-c--CcCChHHHHHHHHHhhhc-cc-chhhHHHHHHHHhcCcccCCCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL-T--SVENNNELRSLLVDISSK-KK-KSNVTLSGLLNCIGGLWSTCGG  303 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~-~--~~~~~~~l~~l~~~~~~~-~~-~~~~~~s~lL~~ldg~~~~~~~  303 (431)
                      -+-|.||||+||||+++.||..++++.+..+- -  .+.....+...+...... .. ....+..-+.+.|....  +..
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~gdllR~~~~~~t~lG~~i~~~~~~G~lvpdei~~~ll~~~l~~~~--~~~   87 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQISTGDMLRAAVKAGTPLGVEAKTYMDEGKLVPDSLIIGLVKERLKEAD--CAN   87 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECHHHHHHHHHHTTCHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHSGG--GTT
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeechHHHHHhccCCChHHHHHHHHHhhccccccHHHHHHHHHHHhCcc--cCC
Confidence            35688999999999999999999988775421 0  011112222222221111 11 12233333444454321  222


Q ss_pred             ceEEEEecCCCCCCChh--hhcc-CceeEEEEcCCCCHHHHHHHHHHh
Q 035603          304 ERIIVFTTNHVDKLDPA--LIRR-GRMDKHIEMPYCCFEAFKVLAKNY  348 (431)
Q Consensus       304 ~~ivI~TTN~~~~Ld~A--llRp-GRfd~~I~~~~p~~~~r~~i~~~~  348 (431)
                      +.|+=+   .|..++.|  |-.. ...|..|.+..|.......+....
T Consensus        88 g~ILDG---fPRt~~Qa~~L~~~~~~~d~VI~Ldvp~e~l~~Rl~~R~  132 (230)
T 3gmt_A           88 GYLFDG---FPRTIAQADAMKEAGVAIDYVLEIDVPFSEIIERMSGRR  132 (230)
T ss_dssp             CEEEES---CCCSHHHHHHHHHTTCCCSEEEEECCCHHHHHHHHHTEE
T ss_pred             CeEecC---CCCcHHHHHHHHHhCCCccEEEEEeCCHHHHHHHHHcCC
Confidence            233311   33333322  2221 257889999999877777776654

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.11  E-value=0.0042  Score=65.98  Aligned_cols=33  Identities=30%  Similarity=0.440  Sum_probs=29.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      +.-++|.|+||+||||+++++|..+   |++++.++
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            4458899999999999999999999   99998886

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.10  E-value=0.0069  Score=61.01  Aligned_cols=50  Identities=22%  Similarity=0.135  Sum_probs=33.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---------CCCeEEecccCcCChHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---------NYDVYDLELTSVENNNELRSL  272 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~l  272 (431)
                      |++...-++|+||||||||+|+..+|-..         +..++.++.........++.+
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~  232 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSI  232 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHH
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHH
Confidence            56667778999999999999999776433         233666666553334444443

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.10  E-value=0.0043  Score=54.16  Aligned_cols=28  Identities=25%  Similarity=0.257  Sum_probs=24.2

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ++...-+.|.||.|+|||||+++|++.+
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4445568899999999999999999987

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.09  E-value=0.003  Score=56.97  Aligned_cols=26  Identities=35%  Similarity=0.548  Sum_probs=22.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++-+.|.||+|+|||||++.|++.+.
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            46789999999999999999998763

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.09  E-value=0.0038  Score=60.59  Aligned_cols=31  Identities=32%  Similarity=0.516  Sum_probs=27.2

Q ss_pred             hCCCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          222 IGKAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       222 ~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.++.+..+.|.||+|+|||||+++|++.+.
T Consensus       121 l~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~  151 (305)
T 2v9p_A          121 KGIPKKNCLAFIGPPNTGKSMLCNSLIHFLG  151 (305)
T ss_dssp             HTCTTCSEEEEECSSSSSHHHHHHHHHHHHT
T ss_pred             EEecCCCEEEEECCCCCcHHHHHHHHhhhcC
Confidence            4567777899999999999999999999873

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.01  E-value=0.0034  Score=60.05  Aligned_cols=39  Identities=23%  Similarity=0.139  Sum_probs=30.6

Q ss_pred             hCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecc
Q 035603          222 IGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLEL  260 (431)
Q Consensus       222 ~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~  260 (431)
                      .|++...-++|.||||+|||+|++.||..+    |..++.++.
T Consensus        30 ~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~   72 (296)
T 1cr0_A           30 LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (296)
T ss_dssp             CSBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            366777788999999999999999999865    445655544

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=96.01  E-value=0.0032  Score=58.31  Aligned_cols=32  Identities=19%  Similarity=0.139  Sum_probs=28.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .-+.+.|++|||||++++.+|..+|+++++-+
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d~~   46 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYDDD   46 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEECHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEcHH
Confidence            45789999999999999999999999998743

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.98  E-value=0.0041  Score=61.76  Aligned_cols=53  Identities=23%  Similarity=0.329  Sum_probs=35.0

Q ss_pred             hhhHHHHHHHHHHHHhCHHHHHHhC--CCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          199 SKKKEAIKKDLIKFTEGKEYYAKIG--KAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~~~~~~g--~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.+++.+.+.+...+........+.  +..+.-+.|.||.|+||||+++.||+.+
T Consensus       127 ~~~~~~l~~~l~~~l~~~~~~~~l~l~~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          127 SEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             HHHHHHHHHHHHHHHCCC---CSCCCCSSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcccCCCcceecCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4556666666666665322101122  3345568899999999999999999976

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.96  E-value=0.0042  Score=56.91  Aligned_cols=27  Identities=30%  Similarity=0.479  Sum_probs=23.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.+.-+.|.||+|+|||||++.|++.+
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            344568899999999999999999977

>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=95.96  E-value=0.0045  Score=56.02  Aligned_cols=28  Identities=32%  Similarity=0.465  Sum_probs=23.6

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.+.-+.|.||+|+|||||+++|++.+.
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            3445678999999999999999999874

>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=95.95  E-value=0.0066  Score=59.16  Aligned_cols=39  Identities=18%  Similarity=0.076  Sum_probs=28.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc-----CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL-----NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l-----~~~i~~l~~~~  262 (431)
                      |++.. -++++||||+|||+|+..++..+     +-.++.++...
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~   68 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEF   68 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSC
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            46655 47899999999999987665443     45566666544

>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=95.94  E-value=0.0055  Score=55.62  Aligned_cols=26  Identities=23%  Similarity=0.448  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++-+.|.||+|+|||||+++|+..+.
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45678999999999999999998865

>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=95.92  E-value=0.004  Score=62.64  Aligned_cols=33  Identities=24%  Similarity=0.379  Sum_probs=28.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +-+++.||+|+|||+|+..||..++..++..|.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~~~iis~Ds   35 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDS   35 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHTEEEEECCT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCCCeEeecCc
Confidence            457899999999999999999999987776554

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=95.90  E-value=0.017  Score=52.95  Aligned_cols=31  Identities=29%  Similarity=0.343  Sum_probs=28.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+-|+|.+|||||++++.++. +|+++++.|.
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            577999999999999999998 9999999875

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.88  E-value=0.0067  Score=56.14  Aligned_cols=31  Identities=35%  Similarity=0.456  Sum_probs=25.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC--CCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN--YDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~--~~i~~l  258 (431)
                      .-+.|.||||+||||+++.|+..++  .+++..
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            4567889999999999999999986  455543

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=95.88  E-value=0.0039  Score=48.13  Aligned_cols=68  Identities=12%  Similarity=0.043  Sum_probs=46.1

Q ss_pred             CHHHHHHHHHHhhchhcchhHHHHHhHhccC-CCCHHHHHHHhcccC----CCCCHHHHHHHHHHHHHHHHHH
Q 035603          337 CFEAFKVLAKNYLEIESHELFHEIGSLLGET-DITPADVAENLMPKS----DEDDAGTCLKNLIEALKAAKEK  404 (431)
Q Consensus       337 ~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~adI~~~l~~~~----~~~~~~~~l~~l~~~l~~~~~~  404 (431)
                      +.++|.+|++.++.........++..++..+ |||+|||..+|..+.    .........+++..++++.+..
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~~~i~~~df~~Al~~~~ps   74 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLAKDFEKAYKTVIKK   74 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSSCCCCHHHHHHHHHHHHHGGGTSCCSSBCHHHHHHHHHHHCC-
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccCCcCHHHHHHHHHHHccC
Confidence            6789999999999765433333466777744 999999998876421    2223345667888888776543

>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=95.86  E-value=0.24  Score=51.58  Aligned_cols=167  Identities=13%  Similarity=0.072  Sum_probs=85.2

Q ss_pred             cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHH----HcCCC---eEEecccCcC--C-h
Q 035603          197 MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN----CLNYD---VYDLELTSVE--N-N  266 (431)
Q Consensus       197 g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~----~l~~~---i~~l~~~~~~--~-~  266 (431)
                      |-++.+++|.+.+..-          +-...+.+.++|++|+|||+||+.+++    ...-.   .+.++.+...  + .
T Consensus       132 GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~  201 (549)
T 2a5y_B          132 IREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF  201 (549)
T ss_dssp             CCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHH
Confidence            7777777777655321          112346788999999999999999997    23222   2334444321  1 1


Q ss_pred             HHHHHHHHHhhhcc---------cc-hhhHHHHHHHH----------hcCcccCC------CCceEEEEecCCCCCCChh
Q 035603          267 NELRSLLVDISSKK---------KK-SNVTLSGLLNC----------IGGLWSTC------GGERIIVFTTNHVDKLDPA  320 (431)
Q Consensus       267 ~~l~~l~~~~~~~~---------~~-~~~~~s~lL~~----------ldg~~~~~------~~~~ivI~TTN~~~~Ld~A  320 (431)
                      .-+..++.......         .. .......+.+.          +|.+|...      ..+.-||.||.....   +
T Consensus       202 ~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~~~gs~ilvTTR~~~v---~  278 (549)
T 2a5y_B          202 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEI---S  278 (549)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGG---G
T ss_pred             HHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccccCCCEEEEEcCCHHH---H
Confidence            22233333322110         00 00111222222          23333211      023557777765321   1


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhhchhc--chhHHHHHhHhccCCCCHHHHHHH
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIES--HELFHEIGSLLGETDITPADVAEN  377 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~--~~~~~~i~~l~~~~~~s~adI~~~  377 (431)
                      . ..+..+..+.++..+.++-.+++..+.....  ....+...++++..+-.|--|.-+
T Consensus       279 ~-~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          279 N-AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             G-GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             H-HcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHH
Confidence            1 1112446789999999998899988743322  122223445555555667666533

>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=95.85  E-value=0.0055  Score=62.31  Aligned_cols=62  Identities=19%  Similarity=0.175  Sum_probs=39.1

Q ss_pred             hhhHHHHHHHHHHHHhCHH-HHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          199 SKKKEAIKKDLIKFTEGKE-YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~-~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.+.+.+.+.+...+.... .... -...++-+++.||||+||||++..||..+   |..+..+++.
T Consensus        69 ~~v~~~v~~eL~~~L~~~~~~~~~-~~~~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D  134 (433)
T 3kl4_A           69 EWFISIVYDELSKLFGGDKEPNVN-PTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAAD  134 (433)
T ss_dssp             HHHHHHHHHHHHHHHCSSSCCCCS-CCSSSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             HHHHHHHHHHHHHhcCcccccccc-ccCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecC
Confidence            3455666666666655311 0000 01235678899999999999999999765   6666655544

>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=95.78  E-value=0.0048  Score=59.90  Aligned_cols=59  Identities=17%  Similarity=0.148  Sum_probs=38.1

Q ss_pred             hHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          201 KKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +++.+.+.+...+.....+ .+....++-+++.||+|+||||++..||..+   +..+..++.
T Consensus        79 ~~~~~~~~l~~~l~~~~~~-~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A           79 ALESLKEIILEILNFDTKL-NVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             HHHHHHHHHHHHTCSCCCC-CCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHhCCCCCC-cccCCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            5666666666666432100 1112334568899999999999999999865   445555543

>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=95.76  E-value=0.0063  Score=61.98  Aligned_cols=62  Identities=24%  Similarity=0.287  Sum_probs=39.9

Q ss_pred             hhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          199 SKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       199 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.+++.+.+.+...+..+...... ...+.-+++.||||+||||++..||..+   |..+..+++.
T Consensus        73 ~~v~~~l~~eL~~~L~~~~~~~~~-~~~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D  137 (443)
T 3dm5_A           73 EHIIKIVYEELTKFLGTEAKPIEI-KEKPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSD  137 (443)
T ss_dssp             HHHHHHHHHHHHHHTTSSCCCCCC-CSSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             HHHHHHHHHHHHHHhcCccccccc-CCCCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            455666677676666531100000 1135678999999999999999999865   5666555543

>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=95.76  E-value=0.0053  Score=63.38  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=22.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +.-++|.||+|+||||+++.||+.+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHh
Confidence            4457899999999999999999876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.75  E-value=0.0022  Score=57.90  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=21.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -+.|.||||+||||+++.|+..++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            367999999999999999999885

>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=95.75  E-value=0.011  Score=58.64  Aligned_cols=24  Identities=54%  Similarity=0.758  Sum_probs=21.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -+++.||+|+||||+.++|++.+.
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            478999999999999999998763

>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=95.69  E-value=0.0067  Score=55.86  Aligned_cols=29  Identities=31%  Similarity=0.458  Sum_probs=24.1

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+.+.-+.|.||+|+|||||+++|++.+.
T Consensus        13 ~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           13 MAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            34556788999999999999999999875

>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=95.67  E-value=0.012  Score=57.66  Aligned_cols=52  Identities=27%  Similarity=0.281  Sum_probs=33.7

Q ss_pred             hhHHHHHHHHHHHHhCHH---HH-HHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          200 KKKEAIKKDLIKFTEGKE---YY-AKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~---~~-~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .+++.+.+.+...+....   .. .....+.+.-+.|.||+|+||||+++.||+.+
T Consensus        98 ~~~~~l~~~l~~~l~~~~~~~~~~~~~~~~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C           98 IIEEAVKEAVSEILETSRRIDLIEEIRKAEKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             HHHHHHHHHHHHHSCCSSCCCHHHHHHSSCSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCccccchhhhcccCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            455556666665554321   00 01122345668899999999999999999876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.65  E-value=0.0067  Score=56.40  Aligned_cols=27  Identities=22%  Similarity=0.176  Sum_probs=23.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .-+-|.||+|+||||+++.|++.+|..
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            346789999999999999999988754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.61  E-value=0.0053  Score=53.88  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=19.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMA  248 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA  248 (431)
                      .+.-+.|.||+|+|||||++++.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            34457899999999999999854

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.58  E-value=0.0086  Score=56.64  Aligned_cols=27  Identities=41%  Similarity=0.541  Sum_probs=22.9

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +...-++|.||+|+||||++++|++.+
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            344557899999999999999999865

>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=95.54  E-value=0.0081  Score=57.78  Aligned_cols=28  Identities=29%  Similarity=0.262  Sum_probs=23.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .+.-+.+.||+|+||||+++.|+..++.
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3445779999999999999999998863

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.53  E-value=0.0068  Score=54.52  Aligned_cols=23  Identities=43%  Similarity=0.788  Sum_probs=21.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -+.|.||+|+||||+++.||+.+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            47899999999999999999987

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=95.53  E-value=0.0018  Score=50.92  Aligned_cols=66  Identities=11%  Similarity=-0.063  Sum_probs=42.7

Q ss_pred             CHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhcccC----CCCCHHHHHHHHHHHHHHHH
Q 035603          337 CFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLMPKS----DEDDAGTCLKNLIEALKAAK  402 (431)
Q Consensus       337 ~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~~~~----~~~~~~~~l~~l~~~l~~~~  402 (431)
                      +.++|++|++.++.........++..++.. .|||||||..+|..+.    .........++|..++++..
T Consensus         2 d~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~SGADl~~l~~eAa~~a~r~~~~~i~~~df~~Al~~v~   72 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVDKVI   72 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBCSCCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHSCSSBCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHCCCCCCCccCHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHh
Confidence            457899999999876544333356677764 4999999998886421    11112245567777776654

>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=95.51  E-value=0.048  Score=45.96  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|+||+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999864

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.47  E-value=0.021  Score=57.75  Aligned_cols=50  Identities=30%  Similarity=0.493  Sum_probs=35.0

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCce-eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRG-YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +.+++++....+.+..+.+ +   +.           .+.+ +++.||+|+||||+.++|++.+..
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~-l---~~-----------~~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRR-L---IK-----------RPHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHH-H---HT-----------SSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             CCCHHHcCCCHHHHHHHHH-H---HH-----------hcCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            4578888877655443322 2   11           1334 689999999999999999998753

>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=95.42  E-value=0.011  Score=61.51  Aligned_cols=28  Identities=21%  Similarity=0.390  Sum_probs=24.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +.-++|.|+||+|||++++.||..+++.
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~   62 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWI   62 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            4568899999999999999999998544

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.36  E-value=0.0048  Score=56.70  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=15.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHH-HHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMA-NCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA-~~l~  252 (431)
                      +.-+.|.||+|+||||+++.|+ +.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~~   53 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQKN   53 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC----
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            4457899999999999999999 8763

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.35  E-value=0.011  Score=58.87  Aligned_cols=29  Identities=41%  Similarity=0.555  Sum_probs=24.0

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ++.+.-+++.||+|+||||++++|++.+.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            34455688999999999999999998753

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.31  E-value=0.027  Score=55.33  Aligned_cols=39  Identities=18%  Similarity=0.169  Sum_probs=30.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~  261 (431)
                      |+....-++|.|+||+|||+|+..+|..   .+.++..+++.
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlE   83 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLE   83 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence            6666667899999999999999999876   35666666553

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.31  E-value=0.021  Score=55.73  Aligned_cols=26  Identities=23%  Similarity=0.147  Sum_probs=22.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||+||||||++++|+..++
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            33567899999999999999999876

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.31  E-value=0.0043  Score=59.67  Aligned_cols=36  Identities=17%  Similarity=0.206  Sum_probs=24.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSV  263 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~  263 (431)
                      .-+.|.||+|+||||+++.++..++   ..+..++...+
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~   44 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   44 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchh
Confidence            3578999999999999999999876   34444554444

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.25  E-value=0.011  Score=57.45  Aligned_cols=39  Identities=21%  Similarity=0.187  Sum_probs=30.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |++...-++|.|+||+|||+++..+|...   +.+++.+++.
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            67777789999999999999999998654   3455555544

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.24  E-value=0.0095  Score=58.14  Aligned_cols=61  Identities=28%  Similarity=0.388  Sum_probs=38.3

Q ss_pred             hHHHHHHHHHHHHhCHHH---HHHhC--CCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          201 KKEAIKKDLIKFTEGKEY---YAKIG--KAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       201 ~k~~i~~~l~~~~~~~~~---~~~~g--~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +++.+.+.+...+.....   ...+.  ...++.+++.||+|+||||++..||..+   +..+..+++.
T Consensus        74 ~~~~~~~~l~~~l~~~~~~~~~~~l~~~~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D  142 (320)
T 1zu4_A           74 IKDALVESLYQAYTDNDWTNKKYRIDFKENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAAD  142 (320)
T ss_dssp             HHHHHHHHHHHHHHCSCC----CCCCCCTTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             HHHHHHHHHHHHhCcccccccccCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            555566666666543210   01111  2345678899999999999999999865   5566655543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.22  E-value=0.019  Score=53.21  Aligned_cols=32  Identities=22%  Similarity=0.202  Sum_probs=22.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-------CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-------NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-------~~~i~~l~  259 (431)
                      .-+.|.||+|+||||+++.++..+       |++++...
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~r   64 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTR   64 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeec
Confidence            346788999999999999999987       66665443

>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=95.21  E-value=0.0095  Score=62.81  Aligned_cols=33  Identities=39%  Similarity=0.385  Sum_probs=26.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +-+++.||||||||+++.+++..+   +..+..+..
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            578899999999999999998754   566665543

>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=95.21  E-value=0.013  Score=52.34  Aligned_cols=32  Identities=22%  Similarity=0.224  Sum_probs=27.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      +|++|++|+|||++|..+|.. +.+++.+....
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 87877776554

>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=95.20  E-value=0.012  Score=52.19  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=22.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-+.+.||+|+||||++.+++..+
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            4568899999999999999999864

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.20  E-value=0.014  Score=52.00  Aligned_cols=31  Identities=19%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC---LNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l  258 (431)
                      .-++++||||+|||+++..++..   .|..++.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            45789999999999998666654   35555443

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=95.20  E-value=0.011  Score=62.30  Aligned_cols=32  Identities=28%  Similarity=0.223  Sum_probs=27.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC----CCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN----YDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~----~~i~~l~  259 (431)
                      .-++|.|+||+||||++++++..++    .+++.++
T Consensus       397 ~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD  432 (573)
T 1m8p_A          397 FTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL  432 (573)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEEC
Confidence            4578999999999999999999987    6777776

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.18  E-value=0.021  Score=50.05  Aligned_cols=27  Identities=15%  Similarity=0.508  Sum_probs=22.8

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ....-+++.|++|+|||||+.++.+..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344578999999999999999998753

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.17  E-value=0.0099  Score=52.83  Aligned_cols=29  Identities=28%  Similarity=0.389  Sum_probs=24.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .+|+||.||+|+|||++|.++... |..++
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r-G~~lv   44 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR-GHQLV   44 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCeEe
Confidence            579999999999999999999884 55444

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.15  E-value=0.011  Score=52.00  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -.+|+||.|+|||++++||+..++
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHc
Confidence            457999999999999999999876

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=95.09  E-value=0.012  Score=56.87  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .-+-|.||+|+||||+++.|++.++
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4567899999999999999999876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.09  E-value=0.013  Score=54.25  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-+.+.|++|+||||+++.||..++
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            4578999999999999999999994

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.09  E-value=0.018  Score=53.41  Aligned_cols=34  Identities=21%  Similarity=0.201  Sum_probs=26.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      -.+++.||||+|||+++-.+|..+   |.++..++..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D   43 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVE   43 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeC
Confidence            358899999999999999988764   7777655543

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.08  E-value=0.0069  Score=62.15  Aligned_cols=30  Identities=20%  Similarity=0.315  Sum_probs=25.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +.-++|.|+||+|||++++.+|..++..++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~~   68 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIGV   68 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccCC
Confidence            356899999999999999999998875443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.02  E-value=0.015  Score=60.34  Aligned_cols=59  Identities=17%  Similarity=0.216  Sum_probs=36.9

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCC--CCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGK--AWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~--~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .+.+.+.+.+...+.....  .+..  ..++.+++.|+||+||||++..||..+   |..+..+++
T Consensus        74 ~~~~~v~~eL~~ll~~~~~--~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W           74 MIQHAVFKELVKLVDPGVK--AWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             HHHHHHHHHHHHHHCCCCC--CCCCCSS--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHHhccccc--hhccccCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            3555555556555543110  0111  224578899999999999999999766   666666554

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.02  E-value=0.0056  Score=57.56  Aligned_cols=29  Identities=21%  Similarity=0.362  Sum_probs=24.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc-CCCeE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL-NYDVY  256 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l-~~~i~  256 (431)
                      .-|.|.|++|+||||+++.||..+ +..++
T Consensus        25 ~~I~ieG~~GsGKST~~~~L~~~l~~~~~i   54 (263)
T 1p5z_B           25 KKISIEGNIAAGKSTFVNILKQLCEDWEVV   54 (263)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEEE
Confidence            457889999999999999999998 54333

>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=94.97  E-value=0.016  Score=56.03  Aligned_cols=26  Identities=35%  Similarity=0.496  Sum_probs=22.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||+|+||||+++.||+.+.
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45688999999999999999998764

>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=94.90  E-value=0.015  Score=56.44  Aligned_cols=27  Identities=22%  Similarity=0.080  Sum_probs=22.7

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+.-+.|.||+|+|||||++.|++.+.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            344567899999999999999999774

>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=94.85  E-value=0.014  Score=62.17  Aligned_cols=24  Identities=42%  Similarity=0.607  Sum_probs=19.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ...|+.||||||||+++..++..+
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999888776653

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.81  E-value=0.017  Score=52.92  Aligned_cols=32  Identities=34%  Similarity=0.268  Sum_probs=25.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~  259 (431)
                      .-+.|.||+|+||||+++.++..++   ++++...
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            4467889999999999999998774   5665443

>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=94.80  E-value=0.012  Score=61.07  Aligned_cols=26  Identities=8%  Similarity=-0.001  Sum_probs=23.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..+.|.|++||||||+++++|..|+.
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHHH
Confidence            45789999999999999999999985

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.80  E-value=0.014  Score=60.70  Aligned_cols=27  Identities=22%  Similarity=0.332  Sum_probs=23.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +..+++.||+|+||||++++|++.+..
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            457999999999999999999998753

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.78  E-value=0.023  Score=57.79  Aligned_cols=63  Identities=14%  Similarity=0.195  Sum_probs=39.1

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      .+.+.+.+.+...+.....--......++.+++.|++|+||||++..||..+    |..+..+++..
T Consensus        73 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~  139 (433)
T 2xxa_A           73 EFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADV  139 (433)
T ss_dssp             TTHHHHHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCC
T ss_pred             HHHHHHHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCC
Confidence            3455555656555543110000011235678899999999999999999765    67776666543

>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=94.74  E-value=0.024  Score=52.31  Aligned_cols=30  Identities=17%  Similarity=0.153  Sum_probs=23.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---NYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l  258 (431)
                      -++++||||+|||+++..+|..+   |..++.+
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~   46 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVF   46 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            45778999999999988887654   5566555

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.73  E-value=0.017  Score=58.88  Aligned_cols=39  Identities=21%  Similarity=0.256  Sum_probs=30.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~  261 (431)
                      |++.+.-++|.||||+|||+|+..+|..+    |.+++.+++.
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            56666778999999999999999988743    5567666654

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.71  E-value=0.013  Score=59.47  Aligned_cols=34  Identities=26%  Similarity=0.340  Sum_probs=26.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      ++-+++.||||+||||++..+|..+   |..+..+++
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~  135 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAA  135 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Confidence            3578999999999999999999876   355555443

>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=94.68  E-value=0.017  Score=51.32  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=20.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+.|.||+|+|||||++++++.
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            35789999999999999999985

>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=94.61  E-value=0.02  Score=55.24  Aligned_cols=60  Identities=20%  Similarity=0.229  Sum_probs=38.0

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHH-h--CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAK-I--GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~-~--g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .+++.+.+.+...+....  .. +  ... ++-+++.||+|+||||++..+|..+   +..+..++...
T Consensus        71 ~~~~~~~~~l~~~~~~~~--~~~i~~~~~-~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~  136 (297)
T 1j8m_F           71 WFIKIVYDELSNLFGGDK--EPKVIPDKI-PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADV  136 (297)
T ss_dssp             HHHHHHHHHHHHHTTCSC--CCCCSCSSS-SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             HHHHHHHHHHHHHhcccc--ccccccCCC-CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence            345555566655554321  11 1  112 4567889999999999999999876   66666665543

>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=94.58  E-value=0.015  Score=54.08  Aligned_cols=28  Identities=29%  Similarity=0.330  Sum_probs=23.8

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ...-+.|.||.|+|||||.++|++.+..
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p   57 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLDKP   57 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCC
Confidence            3456889999999999999999987754

>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=94.58  E-value=0.014  Score=54.37  Aligned_cols=27  Identities=22%  Similarity=0.297  Sum_probs=23.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +...-+.|.||.|+|||||+++|++.+
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344568899999999999999999865

>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=94.58  E-value=0.021  Score=50.50  Aligned_cols=32  Identities=16%  Similarity=0.291  Sum_probs=25.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      +.+.+.||+|+|||+++..++..+   |+.+..+.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            467899999999999999999875   45555544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.57  E-value=0.02  Score=48.39  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=20.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+|+.++++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999874

>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=94.54  E-value=0.017  Score=51.20  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=20.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -+.|.||+|+|||||++.+++..
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            57899999999999999999854

>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=94.53  E-value=0.018  Score=56.92  Aligned_cols=28  Identities=21%  Similarity=0.431  Sum_probs=24.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ..-+.|.||+|+|||||+++|++.+..+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4568899999999999999999987654

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.51  E-value=0.02  Score=58.22  Aligned_cols=39  Identities=15%  Similarity=0.083  Sum_probs=30.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~  261 (431)
                      |++.+.-+++.||||+|||+++..+|...    |.+++.+++.
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            56666778999999999999999888643    5567666654

>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=94.51  E-value=0.02  Score=55.12  Aligned_cols=59  Identities=19%  Similarity=0.252  Sum_probs=37.2

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhC-CCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEeccc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIG-KAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELT  261 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~  261 (431)
                      .+++.+.+.+...+....   ... ...++-++|.||+|+||||++..||..+    |..+..++..
T Consensus        80 ~~~~~~~~~l~~~l~~~~---~~~~~~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D  143 (296)
T 2px0_A           80 NVVGKLQEILCDMLPSAD---KWQEPIHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTD  143 (296)
T ss_dssp             THHHHHHHHHHTTSCCGG---GSCCCCCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECC
T ss_pred             HHHHHHHHHHHHHhCCcc---cccccCCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence            455555555555443221   111 1235578899999999999999999755    4566655543

>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=94.49  E-value=0.021  Score=48.49  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||||+.++.+.
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45899999999999999999874

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.48  E-value=0.025  Score=51.91  Aligned_cols=31  Identities=26%  Similarity=0.179  Sum_probs=25.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-+.|.||+|+||||+++.++..++.+...+
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~~~~~~~   36 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQPNCKLL   36 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHCSSEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcccceEE
Confidence            4577889999999999999999998754333

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.45  E-value=0.015  Score=52.99  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+.|.||.|+|||||+++|++.
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999999986

>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=94.44  E-value=0.025  Score=50.75  Aligned_cols=25  Identities=16%  Similarity=0.480  Sum_probs=22.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-++|.|+||+|||+|+.++++..
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568999999999999999999854

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.41  E-value=0.012  Score=54.30  Aligned_cols=27  Identities=22%  Similarity=0.231  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~~p   56 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLDAP   56 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            345789999999999999999987653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.39  E-value=0.019  Score=53.62  Aligned_cols=26  Identities=31%  Similarity=0.557  Sum_probs=22.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .-+.|.||.|+|||||.++|++.+..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p   50 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            56789999999999999999997643

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.37  E-value=0.027  Score=58.12  Aligned_cols=40  Identities=18%  Similarity=-0.007  Sum_probs=30.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      |++...-++|.||||+|||+|+..+|...    |.++..+++..
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~  281 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEE  281 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSS
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccC
Confidence            56666678999999999999999988754    45666665533

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.35  E-value=0.017  Score=54.50  Aligned_cols=27  Identities=22%  Similarity=0.287  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||+++|++.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~~p   58 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLEKP   58 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            445789999999999999999997654

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.32  E-value=0.03  Score=57.08  Aligned_cols=40  Identities=20%  Similarity=0.171  Sum_probs=30.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      |++.+.-+++.|+||+|||+++..+|...   |.++..+++..
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEm  235 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEM  235 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCC
Confidence            56666668999999999999999887654   56666665543

>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=94.27  E-value=0.039  Score=64.74  Aligned_cols=40  Identities=18%  Similarity=0.259  Sum_probs=33.0

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTS  262 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~  262 (431)
                      |++.++.++|+||||||||+||.++|..   .|..++.++...
T Consensus        30 Gi~~G~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~   72 (1706)
T 3cmw_A           30 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEH   72 (1706)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTS
T ss_pred             CcCCCeEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecC
Confidence            6888889999999999999999998864   466677776654

>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=94.25  E-value=0.025  Score=47.97  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

>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=94.23  E-value=0.018  Score=53.66  Aligned_cols=28  Identities=25%  Similarity=0.355  Sum_probs=23.5

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +...-+.|.||.|+|||||.++|++.+.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3345688999999999999999998764

>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=94.23  E-value=0.023  Score=60.26  Aligned_cols=25  Identities=40%  Similarity=0.648  Sum_probs=20.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .+-+++.||||||||+++.++...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            3578999999999999988776554

>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=94.21  E-value=0.033  Score=54.87  Aligned_cols=32  Identities=38%  Similarity=0.396  Sum_probs=25.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      .-+.|.|+||+||||++.+++..+   |..+..++
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~  114 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLA  114 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEe
Confidence            468899999999999999999875   55554443

>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=94.19  E-value=0.027  Score=47.64  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999999864

>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=94.18  E-value=0.023  Score=47.80  Aligned_cols=22  Identities=23%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999864

>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=94.18  E-value=0.017  Score=53.39  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=23.3

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...-+.|.||.|+|||||.++|++.+.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            345688999999999999999999764

>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=94.18  E-value=0.027  Score=47.93  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -+++.|+||+|||+|+.++.+.-
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            58999999999999999998753

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.17  E-value=0.018  Score=60.37  Aligned_cols=26  Identities=35%  Similarity=0.386  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +..+.|.||+||||||++++||+.++
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhc
Confidence            34578999999999999999999986

>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=94.16  E-value=0.02  Score=54.17  Aligned_cols=28  Identities=25%  Similarity=0.468  Sum_probs=23.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ...-+.|.||.|+|||||+++|++.+..
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~~p   76 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLEDF   76 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCCCC
Confidence            3445789999999999999999987653

>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=94.14  E-value=0.027  Score=48.40  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999863

>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=94.13  E-value=0.017  Score=52.95  Aligned_cols=27  Identities=26%  Similarity=0.469  Sum_probs=23.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~~p   61 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYLKP   61 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            345789999999999999999987653

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=94.12  E-value=0.027  Score=52.48  Aligned_cols=26  Identities=31%  Similarity=0.419  Sum_probs=22.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||||+||||+++.++..++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~   52 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ   52 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34578899999999999999998763

>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=94.12  E-value=0.018  Score=54.24  Aligned_cols=27  Identities=37%  Similarity=0.605  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~~p   59 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFLKA   59 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            345789999999999999999987654

>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=94.12  E-value=0.023  Score=53.83  Aligned_cols=26  Identities=35%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ...-+.|.||.|+|||||+++|++.+
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34467899999999999999999963

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.12  E-value=0.02  Score=54.09  Aligned_cols=28  Identities=25%  Similarity=0.330  Sum_probs=23.7

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +...-+.|.||.|+|||||+++|++.+.
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            3445688999999999999999998764

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=94.11  E-value=0.026  Score=48.46  Aligned_cols=22  Identities=36%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||+.++++.
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            4789999999999999999863

>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=94.10  E-value=0.025  Score=61.90  Aligned_cols=24  Identities=42%  Similarity=0.607  Sum_probs=19.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-.++.||||||||+++..++..+
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHH
Confidence            357899999999999888776653

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.09  E-value=0.021  Score=54.20  Aligned_cols=29  Identities=34%  Similarity=0.375  Sum_probs=24.2

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +...-+.|.||.|+|||||+++|++.+..
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p   71 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLYQP   71 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            33456889999999999999999997653

>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=94.08  E-value=0.029  Score=47.81  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+.++.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45899999999999999999864

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.06  E-value=0.023  Score=53.93  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=21.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+.|.||+|+|||||+++|++...
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            467999999999999999998653

>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=94.03  E-value=0.029  Score=48.25  Aligned_cols=23  Identities=22%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>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=94.03  E-value=0.028  Score=48.15  Aligned_cols=22  Identities=32%  Similarity=0.653  Sum_probs=19.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      --+++.|+||+|||+|+.++.+
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            3589999999999999999975

>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=94.02  E-value=0.026  Score=47.97  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999999863

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.00  E-value=0.022  Score=59.23  Aligned_cols=29  Identities=24%  Similarity=0.292  Sum_probs=25.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |++...-++|.||||+|||+|++.+|...
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56666778999999999999999999764

>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=93.98  E-value=0.031  Score=47.41  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      --+++.|+||+|||+|+.++.+
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3589999999999999999986

>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=93.97  E-value=0.02  Score=53.63  Aligned_cols=27  Identities=22%  Similarity=0.236  Sum_probs=23.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||+++|++.+..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   61 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYIP   61 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            446789999999999999999997654

>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=93.97  E-value=0.024  Score=56.18  Aligned_cols=27  Identities=22%  Similarity=0.407  Sum_probs=22.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|||||||.++||+.+..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~~p   56 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFEQP   56 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCCC
Confidence            345789999999999999999997643

>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=93.96  E-value=0.022  Score=53.35  Aligned_cols=24  Identities=38%  Similarity=0.455  Sum_probs=21.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+.|.||.|+|||||+++|++.
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345789999999999999999996

>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=93.94  E-value=0.024  Score=49.63  Aligned_cols=21  Identities=24%  Similarity=0.642  Sum_probs=19.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|+||+|||||++.+++
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999986

>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=93.94  E-value=0.023  Score=59.12  Aligned_cols=29  Identities=28%  Similarity=0.400  Sum_probs=23.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHH--HHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAA--MANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~a--iA~~l  251 (431)
                      +++....++|.||||||||+|++.  +++.+
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~   65 (525)
T 1tf7_A           35 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGII   65 (525)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            456677899999999999999999  45543

>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=93.93  E-value=0.028  Score=49.30  Aligned_cols=24  Identities=25%  Similarity=0.330  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      --+++.|++|+|||+|+.++.+..
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999997654

>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=93.91  E-value=0.024  Score=53.39  Aligned_cols=28  Identities=25%  Similarity=0.411  Sum_probs=23.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ...-+.|.||.|+|||||.++|++.+..
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~~p   67 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLIKP   67 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3445789999999999999999987643

>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=93.91  E-value=0.021  Score=53.19  Aligned_cols=27  Identities=30%  Similarity=0.432  Sum_probs=23.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p   58 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            345789999999999999999987653

>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=93.91  E-value=0.033  Score=47.20  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=19.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|+||+|||+|+.++.+.
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            5889999999999999999863

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.88  E-value=0.027  Score=47.86  Aligned_cols=21  Identities=29%  Similarity=0.596  Sum_probs=19.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||+|+.++.+
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999999986

>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=93.87  E-value=0.021  Score=54.45  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=22.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|+|||||+++|++.+.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~~   59 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGILK   59 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            34578999999999999999998764

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.87  E-value=0.069  Score=48.41  Aligned_cols=46  Identities=30%  Similarity=0.491  Sum_probs=30.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc--CCCeEEecccC-cCChHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL--NYDVYDLELTS-VENNNELRSLLV  274 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l--~~~i~~l~~~~-~~~~~~l~~l~~  274 (431)
                      =|.|.|+.|+||||.++.++..|  |.+++...-.. ......+++++.
T Consensus         4 FI~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A            4 FITFEGPEGSGKTTVINEVYHRLVKDYDVIMTREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTTTSCEEEEESSTTCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHCCCCEEEeeCCCCChHHHHHHHHHh
Confidence            36688999999999999999988  45555443222 112244555554

>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=93.87  E-value=0.019  Score=53.85  Aligned_cols=27  Identities=41%  Similarity=0.509  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~p   52 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTSG   52 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            345789999999999999999997654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.87  E-value=0.027  Score=55.92  Aligned_cols=26  Identities=35%  Similarity=0.576  Sum_probs=22.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|||||||.++||+.+.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCC
Confidence            34577999999999999999998764

>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=93.86  E-value=0.033  Score=48.43  Aligned_cols=23  Identities=22%  Similarity=0.504  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||+|+.++.+.
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            46899999999999999999863

>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=93.85  E-value=0.027  Score=55.80  Aligned_cols=26  Identities=31%  Similarity=0.487  Sum_probs=22.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|||||||.++||+.+.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCCC
Confidence            34577999999999999999998764

>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=93.85  E-value=0.034  Score=47.11  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=19.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +++.|+||+|||+|+.++.+.
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            789999999999999999763

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.84  E-value=0.024  Score=53.66  Aligned_cols=27  Identities=30%  Similarity=0.447  Sum_probs=22.9

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...-+.|.||.|+|||||.++|++.+.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~~   58 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLIE   58 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            344578999999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.83  E-value=0.017  Score=57.11  Aligned_cols=28  Identities=25%  Similarity=0.533  Sum_probs=24.3

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .+.-++|.||+|+|||||+++|++.+..
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            3457899999999999999999998753

>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=93.82  E-value=0.048  Score=50.56  Aligned_cols=32  Identities=28%  Similarity=0.494  Sum_probs=25.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc--CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL--NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l--~~~i~~l~  259 (431)
                      ..+++.|++|+||||++..+|..+  |..+..++
T Consensus        15 ~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd   48 (262)
T 1yrb_A           15 MIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   48 (262)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEe
Confidence            356788999999999999999776  55655554

>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=93.79  E-value=0.033  Score=47.43  Aligned_cols=21  Identities=33%  Similarity=0.602  Sum_probs=18.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||+|+.++.+
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999999964

>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=93.78  E-value=0.046  Score=55.40  Aligned_cols=59  Identities=17%  Similarity=0.098  Sum_probs=37.1

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .+++.+.+.+...+....  ..+....++.+++.||+|+||||++..+|..+   +..+..+++
T Consensus        73 ~~~~~v~~~L~~~~~~~~--~~i~l~~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A           73 VILATVYEALKEALGGEA--RLPVLKDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             HHHHHHHHHHHHHTTSSC--CCCCCCSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             HHHHHHHHHHHHHhCCCc--ccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            345555555555554221  11122235568888999999999999999876   455665554

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.78  E-value=0.029  Score=48.89  Aligned_cols=23  Identities=35%  Similarity=0.509  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|++|+|||||+.++++.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35889999999999999999873

>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=93.78  E-value=0.028  Score=55.95  Aligned_cols=27  Identities=30%  Similarity=0.447  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|||||||.++||+.+..
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~~p   63 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLEEP   63 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCC
Confidence            345779999999999999999987643

>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=93.78  E-value=0.03  Score=55.89  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|||||||.++||+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~~p   55 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLETI   55 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCCCC
Confidence            345779999999999999999997643

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.73  E-value=0.031  Score=48.05  Aligned_cols=22  Identities=18%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      --+++.|+||+|||+|+.++.+
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHG
T ss_pred             EEEEEECcCCCCHHHHHHHHHh
Confidence            3589999999999999999975

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.72  E-value=0.034  Score=51.32  Aligned_cols=30  Identities=23%  Similarity=0.151  Sum_probs=24.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC----CeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY----DVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~----~i~~  257 (431)
                      .-+.|.|++|+||||+++.++..++.    +++.
T Consensus        22 ~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~   55 (223)
T 3ld9_A           22 MFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVV   55 (223)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhccCceeeE
Confidence            44678899999999999999987654    5554

>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=93.72  E-value=0.037  Score=47.16  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=20.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|+||+|||+|+.++.+
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999976

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.70  E-value=0.025  Score=55.91  Aligned_cols=26  Identities=31%  Similarity=0.483  Sum_probs=22.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|||||||.++||+.+.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            34577999999999999999998764

>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=93.70  E-value=0.034  Score=47.69  Aligned_cols=23  Identities=35%  Similarity=0.549  Sum_probs=20.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -.+++||.|+|||++..||.-.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            35899999999999999998765

>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=93.70  E-value=0.036  Score=48.04  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=20.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|+||+|||+|+.++.+.
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999864

>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=93.69  E-value=0.033  Score=47.80  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999863

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.69  E-value=0.023  Score=54.18  Aligned_cols=27  Identities=22%  Similarity=0.473  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||.++|++.+..
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~~p   73 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYEPA   73 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            345789999999999999999997754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.69  E-value=0.023  Score=53.36  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=22.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +.-+.|.||.|+|||||.++|++.+.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            34578999999999999999998764

>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=93.66  E-value=0.023  Score=55.52  Aligned_cols=27  Identities=22%  Similarity=0.469  Sum_probs=23.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +..+++.||+|+|||||+++|++.+..
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            457899999999999999999998753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.65  E-value=0.037  Score=48.36  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+.++.+.
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            45899999999999999999875

>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=93.65  E-value=0.038  Score=47.35  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=21.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|++|+|||+|+.++.+.
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999999864

>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=93.62  E-value=0.038  Score=48.46  Aligned_cols=23  Identities=22%  Similarity=0.481  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.62  E-value=0.021  Score=50.40  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=22.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..+.|.||+|+|||||++.|++.+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3578999999999999999999864

>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=93.61  E-value=0.024  Score=55.92  Aligned_cols=27  Identities=22%  Similarity=0.482  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|||||||.++||+....
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~~p   52 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFHVP   52 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCC
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCCCC
Confidence            345779999999999999999987643

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=93.60  E-value=0.19  Score=44.82  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-++|.|+||+|||+|+.++.+
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~   47 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTD   47 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHhc
Confidence            4589999999999999999985

>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=93.60  E-value=0.031  Score=47.48  Aligned_cols=21  Identities=38%  Similarity=0.708  Sum_probs=18.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||+|+.++.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999999864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.58  E-value=0.043  Score=53.78  Aligned_cols=25  Identities=40%  Similarity=0.494  Sum_probs=21.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-+.|.||||+|||||+++|++.+
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhh
Confidence            3457799999999999999999865

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.57  E-value=0.11  Score=50.98  Aligned_cols=24  Identities=46%  Similarity=0.617  Sum_probs=21.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-+.|.||||+|||||..++++.+
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            357799999999999999999864

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.57  E-value=0.036  Score=60.70  Aligned_cols=32  Identities=31%  Similarity=0.404  Sum_probs=22.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL----NYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~  260 (431)
                      -+|+.||||||||+++..++..+    +..+..+..
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~  412 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAP  412 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcC
Confidence            57899999999999877665433    445554433

>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=93.56  E-value=0.022  Score=53.91  Aligned_cols=27  Identities=30%  Similarity=0.509  Sum_probs=23.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+.|.||.|+|||||+++|++.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~~p   63 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYLSP   63 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCCC
Confidence            445789999999999999999997643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.55  E-value=0.034  Score=50.90  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-+.|.||+|+||||.++.++..+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            346789999999999999999877

>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=93.54  E-value=0.04  Score=47.46  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.54  E-value=0.045  Score=47.02  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-+++.|+||+|||+|+.++.+
T Consensus         8 ~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            8 PPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45689999999999999999976

>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=93.52  E-value=0.041  Score=47.52  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46899999999999999999864

>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=93.51  E-value=0.041  Score=48.06  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|++|+|||||+.++++.
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999874

>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=93.50  E-value=0.029  Score=55.89  Aligned_cols=26  Identities=31%  Similarity=0.514  Sum_probs=22.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|||||||.++||+.+.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLEE   54 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCCC
Confidence            34577999999999999999998654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.47  E-value=0.037  Score=49.83  Aligned_cols=25  Identities=20%  Similarity=0.373  Sum_probs=22.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-+++.|+||+|||||+.+++..+.
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            4688999999999999999998864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.46  E-value=0.053  Score=53.42  Aligned_cols=30  Identities=27%  Similarity=0.418  Sum_probs=25.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .-+.|.||+|+|||+|++.|++.+..+...
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~~~~~g~  101 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGASADIIV  101 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSCCSEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCEEE
Confidence            347899999999999999999998766443

>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=93.46  E-value=0.037  Score=48.28  Aligned_cols=23  Identities=17%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999999874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.46  E-value=0.041  Score=65.39  Aligned_cols=46  Identities=15%  Similarity=0.216  Sum_probs=34.0

Q ss_pred             HHHHHHh---CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          216 KEYYAKI---GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       216 ~~~~~~~---g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      +.+-..+   |++.++.++|+||||+|||+|+..+|...   |..++.++..
T Consensus       369 ~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis~E  420 (2050)
T 3cmu_A          369 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE  420 (2050)
T ss_dssp             HHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTT
T ss_pred             HHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEcC
Confidence            4444445   47888899999999999999999998765   3455555443

>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=93.44  E-value=0.042  Score=47.92  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=20.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-++|.|+||+|||+|++.+.+..
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            358999999999999999988754

>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=93.44  E-value=0.038  Score=47.96  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>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=93.42  E-value=0.038  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999875

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.38  E-value=0.04  Score=47.34  Aligned_cols=22  Identities=32%  Similarity=0.605  Sum_probs=19.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|+||+|||+|+.++.+
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4589999999999999999864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.36  E-value=0.031  Score=52.85  Aligned_cols=25  Identities=32%  Similarity=0.717  Sum_probs=22.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-+.|.||.|+|||||.++|++.+
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567899999999999999999876

>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=93.34  E-value=0.033  Score=48.33  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=20.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||+.++++.
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            5789999999999999999875

>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=93.29  E-value=0.047  Score=47.78  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>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=93.28  E-value=0.047  Score=46.95  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=20.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999999864

>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=93.27  E-value=0.024  Score=56.07  Aligned_cols=26  Identities=27%  Similarity=0.510  Sum_probs=22.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|||||||.++||+.+.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~~   56 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLDV   56 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            34577999999999999999998654

>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=93.26  E-value=0.067  Score=51.36  Aligned_cols=34  Identities=24%  Similarity=0.298  Sum_probs=26.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      ++.+.+.||+|+||||++..+|..+   +..+..++.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~  134 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecC
Confidence            4567788999999999999999865   455655554

>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=93.26  E-value=0.051  Score=47.88  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=21.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|+||+|||+|+.++.+.
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456899999999999999999874

>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=93.26  E-value=0.048  Score=47.22  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45799999999999999999864

>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=93.21  E-value=0.034  Score=48.70  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|+||+|||||+.++.+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346899999999999999999754

>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=93.19  E-value=0.074  Score=49.14  Aligned_cols=32  Identities=22%  Similarity=0.176  Sum_probs=27.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+|+.||+|+|||.++.+++..++..++.+-.
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P  141 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  141 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeC
Confidence            48999999999999999999988777666543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.15  E-value=0.05  Score=47.58  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45899999999999999999874

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.14  E-value=0.054  Score=47.95  Aligned_cols=24  Identities=21%  Similarity=0.350  Sum_probs=21.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|++|+|||+|+.++.+.
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            356899999999999999999864

>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=93.12  E-value=0.054  Score=46.76  Aligned_cols=23  Identities=13%  Similarity=0.296  Sum_probs=20.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+.++.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999863

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=93.11  E-value=0.045  Score=48.25  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=20.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|+||+|||+|+.++.+
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3689999999999999999987

>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=93.10  E-value=0.052  Score=47.37  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999874

>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=93.09  E-value=0.053  Score=46.75  Aligned_cols=23  Identities=13%  Similarity=0.257  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|++|+|||+|+.++.+.
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            46899999999999999999864

>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=93.06  E-value=0.033  Score=53.44  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=22.9

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...-+.|.||.|+|||||.++|++.+.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            344578999999999999999998753

>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=93.05  E-value=0.052  Score=47.86  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=93.02  E-value=0.053  Score=47.57  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|++|+|||+|+..+.+.
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            35899999999999999999864

>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=93.02  E-value=0.043  Score=47.65  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|+||+|||||+.++.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            3789999999999999999863

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.01  E-value=0.05  Score=56.96  Aligned_cols=32  Identities=34%  Similarity=0.346  Sum_probs=25.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~  259 (431)
                      .-++|.|+||+||||+++.++..++   .++..++
T Consensus       373 ~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld  407 (546)
T 2gks_A          373 FCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLD  407 (546)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEEC
Confidence            4578999999999999999999875   3455444

>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=93.00  E-value=0.04  Score=55.21  Aligned_cols=27  Identities=33%  Similarity=0.454  Sum_probs=22.9

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +...-+.|.||.|||||||.++||+.+
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            334568899999999999999999865

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=92.99  E-value=0.077  Score=53.94  Aligned_cols=29  Identities=34%  Similarity=0.471  Sum_probs=24.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .-+.|.||+|||||+|++.||+....+.-
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag~~~~~~G  186 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMARYTRADVI  186 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSCCSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccCCCeE
Confidence            34789999999999999999999876543

>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=92.98  E-value=0.055  Score=47.39  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999863

>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=92.97  E-value=0.055  Score=47.31  Aligned_cols=23  Identities=13%  Similarity=0.252  Sum_probs=20.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>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=92.97  E-value=0.054  Score=47.87  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999874

>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=92.97  E-value=0.041  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+..+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999874

>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=92.92  E-value=0.057  Score=47.35  Aligned_cols=23  Identities=26%  Similarity=0.580  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|++|+|||+|+.++.+.
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999863

>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=92.91  E-value=0.057  Score=47.38  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|++|+|||+|+..+.+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999888764

>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=92.90  E-value=0.026  Score=50.26  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=20.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-+.|.||+|+|||||++++++..
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3457899999999999999987543

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.89  E-value=0.048  Score=55.79  Aligned_cols=28  Identities=14%  Similarity=0.216  Sum_probs=23.8

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +....-+.|.||.|+|||||++.|++.+
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            4445568899999999999999999975

>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=92.89  E-value=0.051  Score=47.71  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -++|.|++|+|||+|+.++.+.-
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            58999999999999999998754

>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=92.89  E-value=0.05  Score=47.84  Aligned_cols=23  Identities=26%  Similarity=0.449  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999864

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=92.88  E-value=0.15  Score=45.84  Aligned_cols=32  Identities=31%  Similarity=0.273  Sum_probs=25.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |.|.|+.|+||||.++.++..|   |.+++...-.
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~treP   37 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKREP   37 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence            4578999999999999999876   6677655443

>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=92.86  E-value=0.059  Score=47.34  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+.++.+.
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=92.85  E-value=0.045  Score=51.12  Aligned_cols=27  Identities=19%  Similarity=0.084  Sum_probs=24.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      -+.|+|+||||||++++.++..+|+++
T Consensus         3 ~i~ltG~~~sGK~tv~~~l~~~~g~~~   29 (241)
T 1dek_A            3 LIFLSGVKRSGKDTTADFIMSNYSAVK   29 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            367999999999999999999888765

>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=92.84  E-value=0.058  Score=47.90  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
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            46899999999999999999863

>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=92.82  E-value=0.059  Score=49.41  Aligned_cols=29  Identities=28%  Similarity=0.413  Sum_probs=23.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+-|.||.|+||||+++.|++. +..+...
T Consensus        22 ~i~i~G~~GsGKSTl~~~L~~~-~g~v~~~   50 (230)
T 2vp4_A           22 TVLIEGNIGSGKTTYLNHFEKY-KNDICLL   50 (230)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGG-TTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhc-cCCeEEE
Confidence            4678899999999999999987 4444433

>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=92.82  E-value=0.05  Score=48.13  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999864

>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=92.79  E-value=0.054  Score=54.83  Aligned_cols=21  Identities=38%  Similarity=0.593  Sum_probs=19.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +.|.||+|+|||||+++|++.
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            779999999999999999975

>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=92.78  E-value=0.042  Score=51.74  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+.|.|+||+|||||+.++.+.
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>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=92.78  E-value=0.053  Score=48.12  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||+|+.++.+.
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999863

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=92.76  E-value=0.32  Score=50.78  Aligned_cols=46  Identities=22%  Similarity=0.301  Sum_probs=31.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVD  275 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  275 (431)
                      -+++.||+|+|||.|+..||+..+.+++.+-+-. +...++.+++.+
T Consensus       234 r~~Ifgg~g~GKT~L~~~ia~~~~~~v~V~~~iG-ER~~Ev~e~~~~  279 (600)
T 3vr4_A          234 AAAVPGPFGAGKTVVQHQIAKWSDVDLVVYVGCG-ERGNEMTDVVNE  279 (600)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSSCSEEEEEEEE-ECHHHHHHHHHH
T ss_pred             EEeeecCCCccHHHHHHHHHhccCCCEEEEEEec-ccHHHHHHHHHH
Confidence            3789999999999999999998777654432222 123445555443

>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=92.75  E-value=0.055  Score=46.73  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-++|.|+||+|||+|+.++.+
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4589999999999999999985

>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=92.70  E-value=0.077  Score=46.25  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=20.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|+||+|||+|+.++.+.
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.69  E-value=0.056  Score=47.07  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||||+.++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>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=92.64  E-value=0.045  Score=54.15  Aligned_cols=25  Identities=32%  Similarity=0.509  Sum_probs=22.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .-+.|.||||+|||||+++|++.+.
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            4678999999999999999998654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.64  E-value=0.057  Score=47.85  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||+|+.++.+.
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45899999999999999999874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.62  E-value=0.056  Score=48.78  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=21.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      .-+++.|+||+|||+|+..++..+
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            467888999999999999999875

>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=92.59  E-value=0.039  Score=53.43  Aligned_cols=30  Identities=27%  Similarity=0.402  Sum_probs=25.1

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++...-+.|.||.|+|||||+++|++.+..
T Consensus        77 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p  106 (306)
T 3nh6_A           77 VMPGQTLALVGPSGAGKSTILRLLFRFYDI  106 (306)
T ss_dssp             ECTTCEEEEESSSCHHHHHHHHHHTTSSCC
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCCCC
Confidence            344566889999999999999999997754

>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=92.58  E-value=0.11  Score=52.50  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.||+|+|||||+++|++.
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4668999999999999999983

>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=92.57  E-value=0.047  Score=52.46  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=21.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .-+.|.||+|+|||||+++|++...
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             CeEEEECCCCCcHHHHHHHhccccc
Confidence            4578999999999999999998654

>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=92.54  E-value=0.065  Score=46.24  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .+.-+++.|+||+|||+|+.++.+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            345789999999999999998863

>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=92.52  E-value=0.077  Score=51.49  Aligned_cols=29  Identities=24%  Similarity=0.321  Sum_probs=24.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      .+|+||.|++|+|||+++.++... |..++
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~lv  172 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHRLV  172 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCcee
Confidence            579999999999999999999875 55444

>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=92.50  E-value=0.098  Score=51.15  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      ..-+.+.||||+||||++.+++..+
T Consensus        56 ~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           56 TLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3457789999999999999999765

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=92.50  E-value=0.029  Score=51.95  Aligned_cols=23  Identities=43%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             EEeCCCCCcHHHHHHHHHHHcCC
Q 035603          231 LLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       231 LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .|.||.|+|||+|.++|+..+..
T Consensus        31 ~i~GpnGsGKSTll~~i~g~~~~   53 (227)
T 1qhl_A           31 TLSGGNGAGKSTTMAAFVTALIP   53 (227)
T ss_dssp             HHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEECCCCCCHHHHHHHHhccccc
Confidence            47799999999999999998753

>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=92.49  E-value=0.061  Score=48.24  Aligned_cols=23  Identities=17%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>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=92.49  E-value=0.061  Score=47.13  Aligned_cols=22  Identities=27%  Similarity=0.587  Sum_probs=20.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|+||+|||+|+.++.+
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHc
Confidence            4689999999999999999987

>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=92.48  E-value=0.063  Score=46.64  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=21.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|+||+|||+|+.++.+.
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            456899999999999999999853

>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=92.47  E-value=0.058  Score=53.50  Aligned_cols=27  Identities=30%  Similarity=0.353  Sum_probs=22.9

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...-+-|.||.|+|||||+++|++.+.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCCC
Confidence            344578999999999999999998664

>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=92.43  E-value=0.041  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=10.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-+++.|+||+|||+|+.++.+
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             EEEEEEECCCCC-----------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999999875

>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=92.38  E-value=0.073  Score=47.51  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=20.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ..-+++.|++|+|||+|+.++.+.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346899999999999999999874

>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=92.37  E-value=0.059  Score=49.44  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||||+.+|.+.
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHcCC
Confidence            46899999999999999999864

>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=92.36  E-value=0.062  Score=52.08  Aligned_cols=30  Identities=33%  Similarity=0.328  Sum_probs=24.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .+|+||.||+|+|||++|.++.. -|..++.
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~lv~  176 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHLFVG  176 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCEEEe
Confidence            58999999999999999998865 4655543

>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=92.31  E-value=0.067  Score=48.25  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=21.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -.+|+||.|+|||++..||.-.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~~~l~g   49 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAILVGLYW   49 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            4689999999999999999877754

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=92.25  E-value=0.092  Score=47.24  Aligned_cols=60  Identities=15%  Similarity=0.059  Sum_probs=35.2

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +..+|+++...+++.+.+.+.   -+..+..+....++   ..+.+++.+|+|+|||..+-..+-.
T Consensus        12 ~~~~f~~~~l~~~l~~~l~~~---g~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~~   74 (220)
T 1t6n_A           12 HSSGFRDFLLKPELLRAIVDC---GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ   74 (220)
T ss_dssp             --CCSTTSCCCHHHHHHHHHT---TCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCCHhhcCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhHHHHH
Confidence            446789998888887777541   01111122211111   1356999999999999876655443

>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=92.24  E-value=0.068  Score=47.79  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||+|+.++.+.
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.22  E-value=0.11  Score=47.22  Aligned_cols=38  Identities=26%  Similarity=0.249  Sum_probs=28.7

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCC-eEEecccC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYD-VYDLELTS  262 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-i~~l~~~~  262 (431)
                      .++.-|++.|.||+||++++..+.+.+|.. +..+.+++
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~g~~~~~vv~msD   47 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSG   47 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHHCTTTEEEECTHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHcCCCCceEEEccH
Confidence            456788999999999999999999877643 33344443

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=92.21  E-value=0.27  Score=50.50  Aligned_cols=48  Identities=21%  Similarity=0.303  Sum_probs=33.0

Q ss_pred             eEEeCCCCCcHHHH-HHHHHHHcCCCeEEecccCcCChHHHHHHHHHhh
Q 035603          230 YLLFGPPGTGKSTM-IAAMANCLNYDVYDLELTSVENNNELRSLLVDIS  277 (431)
Q Consensus       230 ~LL~GPPGtGKTsl-a~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~  277 (431)
                      .++.|++|||||+| ...|++..+.+++.+=..--+...++.++.....
T Consensus       165 ~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~  213 (502)
T 2qe7_A          165 ELIIGDRQTGKTTIAIDTIINQKGQDVICIYVAIGQKQSTVAGVVETLR  213 (502)
T ss_dssp             CEEEECSSSCHHHHHHHHHHGGGSCSEEEEEEEESCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCchHHHHHHHHHhhcCCcEEEEEECCCcchHHHHHHHHHh
Confidence            79999999999999 5799999888865433222234455555554433

>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=92.18  E-value=0.084  Score=46.65  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=19.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|+||+|||+|+..+.+.
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999999864

>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=92.17  E-value=0.069  Score=47.12  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-+++.|+||+|||+|+.++..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999999864

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=92.17  E-value=0.13  Score=46.23  Aligned_cols=32  Identities=16%  Similarity=0.142  Sum_probs=25.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      +-++++||+|+|||+.+..+|..+   |..++.+.
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k   43 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   43 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            456789999999999888887754   67776664

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=92.08  E-value=0.073  Score=48.02  Aligned_cols=59  Identities=15%  Similarity=0.064  Sum_probs=35.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCC---CCCceeEEeCCCCCcHHHH-HHHHHHHc
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGK---AWKRGYLLFGPPGTGKSTM-IAAMANCL  251 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~---~~~rg~LL~GPPGtGKTsl-a~aiA~~l  251 (431)
                      .+|+++...+.+.+.+.+.-   +..+..+....+   -..+.+++.+|+|+|||.. +-++...+
T Consensus        14 ~~f~~l~l~~~l~~~l~~~g---~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~~~~~l~~l   76 (224)
T 1qde_A           14 YKFDDMELDENLLRGVFGYG---FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI   76 (224)
T ss_dssp             CCGGGGTCCHHHHHHHHHHT---CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CChhhcCCCHHHHHHHHHCC---CCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHH
Confidence            67999988888877765421   111111111111   1135799999999999986 34444443

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.08  E-value=0.074  Score=46.61  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999875

>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=92.06  E-value=0.12  Score=51.17  Aligned_cols=22  Identities=14%  Similarity=0.356  Sum_probs=19.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||..++++.
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3779999999999999999864

>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=92.00  E-value=0.091  Score=50.52  Aligned_cols=24  Identities=29%  Similarity=0.505  Sum_probs=20.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .-+.|.||+|+|||||+++|+ .+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             cEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            457899999999999999999 654

>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=91.97  E-value=0.06  Score=47.84  Aligned_cols=22  Identities=18%  Similarity=0.468  Sum_probs=19.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|+||+|||+|+.++.+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3588999999999999999974

>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=91.97  E-value=0.074  Score=46.38  Aligned_cols=23  Identities=17%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-+++.|++|+|||+|+.++.+
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            45689999999999999999984

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.95  E-value=0.077  Score=47.29  Aligned_cols=23  Identities=13%  Similarity=0.372  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999873

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.92  E-value=0.085  Score=46.49  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      --+++.|++|+|||+|+.++.+
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~   42 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTT   42 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4589999999999999999875

>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=91.90  E-value=0.059  Score=46.83  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999863

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=91.82  E-value=0.077  Score=47.05  Aligned_cols=23  Identities=30%  Similarity=0.576  Sum_probs=20.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-+++.|++|+|||+|+.++.+
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHh
Confidence            34689999999999999999874

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=91.82  E-value=0.082  Score=46.85  Aligned_cols=23  Identities=13%  Similarity=0.387  Sum_probs=20.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999874

>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=91.82  E-value=0.07  Score=47.33  Aligned_cols=22  Identities=32%  Similarity=0.527  Sum_probs=19.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-++|.|+||+|||+|+..+++
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3589999999999999999864

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=91.77  E-value=0.085  Score=46.38  Aligned_cols=22  Identities=18%  Similarity=0.560  Sum_probs=19.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|++|+|||+|+.++.+
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999999964

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=91.76  E-value=0.094  Score=47.36  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|++|+|||+|+.++.+.
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>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=91.71  E-value=0.085  Score=46.88  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            45899999999999999999753

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=91.70  E-value=0.053  Score=48.17  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=18.1

Q ss_pred             ceeEEeCCCCCcHHHHH-HHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMI-AAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla-~aiA~~l  251 (431)
                      +.+++.+|+|+|||..+ .++...+
T Consensus        39 ~~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHH
Confidence            57999999999999864 3444443

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.68  E-value=0.088  Score=46.09  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      ..-++|.|++|+|||+|+.++.+
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34689999999999999999865

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.65  E-value=0.087  Score=46.90  Aligned_cols=23  Identities=17%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|+||+|||+|+.++.+.
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999999864

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=91.61  E-value=0.25  Score=50.81  Aligned_cols=48  Identities=15%  Similarity=0.241  Sum_probs=33.1

Q ss_pred             eEEeCCCCCcHHHH-HHHHHHHcCCCeEEecccCcCChHHHHHHHHHhh
Q 035603          230 YLLFGPPGTGKSTM-IAAMANCLNYDVYDLELTSVENNNELRSLLVDIS  277 (431)
Q Consensus       230 ~LL~GPPGtGKTsl-a~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~  277 (431)
                      .++.|++|||||+| ...|++..+.+++.+=..--+...++.++.....
T Consensus       166 ~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~  214 (507)
T 1fx0_A          166 ELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQ  214 (507)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTG
T ss_pred             EEEecCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCchHHHHHHHHHH
Confidence            79999999999999 5799998887754332222234555666555443

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=91.51  E-value=0.073  Score=48.35  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|+||+|||+|+.++.+.
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999763

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=91.51  E-value=0.3  Score=49.87  Aligned_cols=24  Identities=13%  Similarity=0.216  Sum_probs=21.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +++.|++|+|||+|+..||+....
T Consensus       155 ~~Ifgg~G~GKt~Ll~~Ia~~~~~  178 (469)
T 2c61_A          155 LPIFSASGLPHNEIALQIARQASV  178 (469)
T ss_dssp             CCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            667899999999999999998875

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=91.47  E-value=0.16  Score=48.86  Aligned_cols=58  Identities=16%  Similarity=0.062  Sum_probs=34.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC----CCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA----WKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .+|+++...+.+.+.+.+.   -+..+..+....++    -++.+++.+|+|+|||..+-..+-.
T Consensus         6 ~~f~~~~l~~~~~~~l~~~---g~~~~~~~Q~~~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~~~   67 (367)
T 1hv8_A            6 MNFNELNLSDNILNAIRNK---GFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE   67 (367)
T ss_dssp             CCGGGSSCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             CchhhcCCCHHHHHHHHHc---CCCCCCHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHH
Confidence            4677887777777666541   11111112111111    1368999999999999976654443

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=91.35  E-value=0.1  Score=51.64  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=20.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -.+|+||.|+|||||..||+..+
T Consensus        25 ~~~i~G~NGaGKTTll~ai~~al   47 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAISFAL   47 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999998654

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=91.34  E-value=0.086  Score=49.44  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-++|.|+||+|||||+.++.+
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g   27 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTG   27 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHC
Confidence            3588999999999999999986

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=91.32  E-value=0.11  Score=46.69  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=20.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      --+++.|++|+|||+|+..+.+.
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999864

>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=91.32  E-value=0.14  Score=52.68  Aligned_cols=25  Identities=36%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..+.|.||.|+|||||.++|++.+.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            4678999999999999999999764

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=91.31  E-value=0.31  Score=50.15  Aligned_cols=47  Identities=17%  Similarity=0.261  Sum_probs=30.9

Q ss_pred             eeEEeCCCCCcHHHH-HHHHHHHcCCCeEEecccCcCChHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTM-IAAMANCLNYDVYDLELTSVENNNELRSLLVD  275 (431)
Q Consensus       229 g~LL~GPPGtGKTsl-a~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  275 (431)
                      -.++.|++|||||++ ...|++..+.+++.+-..--+...++.++...
T Consensus       164 R~~Ifg~~g~GKT~l~l~~I~n~~~~dv~~V~~~IGeR~~ev~e~~~~  211 (513)
T 3oaa_A          164 RELIIGDRQTGKTALAIDAIINQRDSGIKCIYVAIGQKASTISNVVRK  211 (513)
T ss_dssp             BCEEEESSSSSHHHHHHHHHHTTSSSSCEEEEEEESCCHHHHHHHHHH
T ss_pred             EEEeecCCCCCcchHHHHHHHhhccCCceEEEEEecCChHHHHHHHHH
Confidence            379999999999999 57999887777543322222334445554443

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=91.30  E-value=0.093  Score=47.12  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=19.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+++.|++|+|||+|+.++.+
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4689999999999999999974

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=91.27  E-value=0.1  Score=46.49  Aligned_cols=24  Identities=13%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .--+++.|+||+|||+|+.++.+.
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            346899999999999999998863

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=91.20  E-value=0.1  Score=54.39  Aligned_cols=27  Identities=37%  Similarity=0.366  Sum_probs=23.1

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ...-+.|.||.|+|||||+++|++.+.
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl~~   72 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQLI   72 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            345688999999999999999998653

>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=91.16  E-value=0.093  Score=49.17  Aligned_cols=22  Identities=41%  Similarity=0.697  Sum_probs=19.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||..++.+.
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            5789999999999999999864

>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=91.16  E-value=0.11  Score=49.28  Aligned_cols=22  Identities=23%  Similarity=0.528  Sum_probs=20.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||..++.+.
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            5789999999999999999863

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=90.99  E-value=0.052  Score=47.90  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=4.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+|+.++.+.
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEC-----------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999998764

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=90.97  E-value=0.21  Score=51.00  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|+||+|||||..++.+.
T Consensus       226 kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          226 KVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            3899999999999999999875

---

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	431
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	4e-24
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	3e-23
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-20
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	2e-13
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	5e-12
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	2e-09
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	3e-08
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	3e-07
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	5e-05
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	1e-04
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	2e-04
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	0.002
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	0.002

>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 = 98.7 bits (245), Expect = 4e-24
 Identities = 45/260 (17%), Positives = 105/260 (40%), Gaps = 41/260 (15%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC 250
           T++ +      K  +++ +    E  + + K G    +G L +GPPG GK+ +  A+AN 
Sbjct: 5   TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE 64

Query: 251 LNYDVYDLELTSV------ENNNELRSL-------------LVDISSKKKK--------- 282
              +   ++   +      E+   +R +               ++ S  K          
Sbjct: 65  CQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGG 124

Query: 283 --SNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEA 340
             ++  ++ +L  + G+ +       I+  TN  D +DPA++R GR+D+ I +P    ++
Sbjct: 125 GAADRVINQILTEMDGMSTKKNV--FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKS 182

Query: 341 FKVLAKNYLEIESHELFHEIGSLLGETD-ITPADVAENLMPKSDEDDAGTCLKNLIEALK 399
              + K  L         ++  L   T+  + AD+   +  ++       C   + E+++
Sbjct: 183 RVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADL-TEICQRA-------CKLAIRESIE 234

Query: 400 AAKEKAKKNAGEEAELKAEE 419
           +   + ++     + ++ EE
Sbjct: 235 SEIRRERERQTNPSAMEVEE 254

>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 = 95.7 bits (238), Expect = 3e-23
 Identities = 45/216 (20%), Positives = 82/216 (37%), Gaps = 34/216 (15%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC 250
           TF  +A A + KE +K ++++F +    + ++G    +G LL GPPG GK+ +  A+A  
Sbjct: 7   TFKDVAGAEEAKEELK-EIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 65

Query: 251 LNYDVYDLELTSV------ENNNELRSLL---------------VD---------ISSKK 280
                     +             +R L                +D         +    
Sbjct: 66  ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGN 125

Query: 281 KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEA 340
            +   TL+ LL  + G         +++  TN  D LDPAL+R GR D+ I +     + 
Sbjct: 126 DEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 183

Query: 341 FKVLAKNYLEIESHELFHEIGSLLGETD-ITPADVA 375
            + + + +   +      ++  L   T     AD+ 
Sbjct: 184 REQILRIHARGKPLAEDVDLALLAKRTPGFVGADLE 219

>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 = 88.7 bits (220), Expect = 1e-20
 Identities = 43/216 (19%), Positives = 82/216 (37%), Gaps = 34/216 (15%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC 250
           TF  +A   + KE +  +L+++      + K+G    +G L+ GPPGTGK+ +  A+A  
Sbjct: 10  TFADVAGCDEAKEEVA-ELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 251 LNYDVYDLELTSV------ENNNELRSLL------------------------VDISSKK 280
                + +  +           + +R +                           +    
Sbjct: 69  AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGH 128

Query: 281 KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEA 340
            +   TL+ +L  + G     G   I++  TN  D LDPAL+R GR D+ + +       
Sbjct: 129 DEREQTLNQMLVEMDGFEGNEG--IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRG 186

Query: 341 FKVLAKNYLEIESHELFHEIGSLLGETD-ITPADVA 375
            + + K ++         +   +   T   + AD+A
Sbjct: 187 REQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLA 222

>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 = 67.7 bits (164), Expect = 2e-13
 Identities = 51/261 (19%), Positives = 91/261 (34%), Gaps = 49/261 (18%)

Query: 191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC 250
            +D +    K+   IK+ +         +  IG    RG LL+GPPGTGK+ +  A+AN 
Sbjct: 2   GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 61

Query: 251 LNYDVYDLELTSVE-----NNNELRSLLVDISSKKKKSNV-------------------- 285
                + +    +       +        + + K   + +                    
Sbjct: 62  TGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVE 121

Query: 286 --TLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKV 343
              +S LL  + GL        I++  TN  + +DPAL R GR D+ +++          
Sbjct: 122 RRIVSQLLTLMDGLKQRAH--VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLE 179

Query: 344 LAKNYLEIESHELFHEIGSLLGETD-ITPADVAENLMPKSDEDDAGTCLKNLIE--ALKA 400
           + + + +        ++  +  ET     AD                 L  L    AL+A
Sbjct: 180 ILQIHTKNMKLADDVDLEQVANETHGHVGAD-----------------LAALCSEAALQA 222

Query: 401 AKEKAKKNAGEEAELKAEEAN 421
            ++K      E+  + AE  N
Sbjct: 223 IRKKMDLIDLEDETIDAEVMN 243

>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 = 64.7 bits (157), Expect = 5e-12
 Identities = 35/285 (12%), Positives = 75/285 (26%), Gaps = 54/285 (18%)

Query: 157 AIAVRNRQRKLYKNVPCQAWYEKKWSHVYFEHPATFDT-LAMASKKKEAIKKDLIKFTEG 215
              V  ++R     +  +     +++ +       F +  +   ++  A    L      
Sbjct: 76  VDTVLAKKRVDSLQLTREQMLTNRFNDLLDRMDIMFGSTGSADIEEWMAGVAWLHCLLPK 135

Query: 216 -----KEYYAKI--GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNE 268
                 ++   +      KR +L  GP  +GK+T+ AA+         ++ L     N E
Sbjct: 136 MDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFE 195

Query: 269 LRSLL---------VDISSKKKKSNVT------LSGLLNCIGGLWSTCGGE--------- 304
           L   +         V  +  + +   +      L  L + + G       +         
Sbjct: 196 LGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQI 255

Query: 305 -RIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSL 363
               + T N           + R  K I+                      E    +  L
Sbjct: 256 FPPGIVTMNE---YSVPKTLQARFVKQIDFRP-----------KDYLKHCLERSEFL--L 299

Query: 364 LGETDITPADVAENLMPKSDEDDAGTCLKNLI-EALKAAKEKAKK 407
                 +   +   L+      +        I   +   KE+  K
Sbjct: 300 EKRIIQSGIALLLMLIWYRPVAE----FAQSIQSRIVEWKERLDK 340

>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 = 55.7 bits (133), Expect = 2e-09
 Identities = 37/262 (14%), Positives = 66/262 (25%), Gaps = 51/262 (19%)

Query: 202 KEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVY----D 257
           +  +  +L +  +GK+            +LL G PG+GK+++ +A+      +V     D
Sbjct: 12  ENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDND 66

Query: 258 LELTSVENNNELRSLLVDISSKKKKSNV-------------------------------T 286
                  N +EL  L      K                                      
Sbjct: 67  TFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQ 126

Query: 287 LSGLLNCIGGL----WSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYC---CFE 339
            + +L   G                + T    + +        R                
Sbjct: 127 TATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHDIVVKNLPT 186

Query: 340 AFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALK 399
             + L K  L  +      E   L    +       E L     E +     K +   L+
Sbjct: 187 NLETLHKTGLFSDIRLYNREGVKLYSSLETPSISPKETLE---KELNRKVSGKEIQPTLE 243

Query: 400 AAKEKA-KKNAGEEAELKAEEA 420
             ++K       E  E KA + 
Sbjct: 244 RIEQKMVLNKHQETPEFKAIQQ 265

>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 = 52.2 bits (124), Expect = 3e-08
 Identities = 31/248 (12%), Positives = 65/248 (26%), Gaps = 50/248 (20%)

Query: 199 SKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDL 258
                 +  D     +         +      LL GPP +GK+ + A +A   N+    +
Sbjct: 15  GDPVTRVLDDGELLVQ---QTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKI 71

Query: 259 ELTSVENN---------------------------NELRSLLVDISSKKKKSNVTLSGLL 291
                                              +++  LL  +    + SN+ L  LL
Sbjct: 72  CSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALL 131

Query: 292 NCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI 351
             +         + +I+ TT+  D L             I +P                I
Sbjct: 132 VLLKKAPPQGR-KLLIIGTTSRKDVLQEME-MLNAFSTTIHVP---------------NI 174

Query: 352 ESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGE 411
            + E   ++   L             +  +         +K L+  ++ + +   +    
Sbjct: 175 ATGE---QLLEALELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVR 231

Query: 412 EAELKAEE 419
           +      E
Sbjct: 232 KFLALLRE 239

>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 = 49.0 bits (115), Expect = 3e-07
 Identities = 26/154 (16%), Positives = 46/154 (29%), Gaps = 9/154 (5%)

Query: 189 PATFDTLAMASKKKEAIKKDLIKFTEGKEY----YAKIGKAWKRGYLLFGPPGTGKSTMI 244
           P     +         +K  L  +   K+       K G    R  +L+GPPG GK+T  
Sbjct: 10  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 69

Query: 245 AAMANCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGE 304
             +A  L YD+ +   + V +   L +       K    N+++ G         +  G  
Sbjct: 70  HLVAQELGYDILEQNASDVRSKTLLNA-----GVKNALDNMSVVGYFKHNEEAQNLNGKH 124

Query: 305 RIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCF 338
            +I+                       +      
Sbjct: 125 FVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLI 158

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 42.3 bits (98), Expect = 5e-05
 Identities = 36/242 (14%), Positives = 71/242 (29%), Gaps = 28/242 (11%)

Query: 189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           P T D        +E +K+ L  + E     AK  K      LLFGPPG GK+T+   +A
Sbjct: 5   PKTLDEYIG----QERLKQKLRVYLE----AAKARKEPLEHLLLFGPPGLGKTTLAHVIA 56

Query: 249 NCLNYDVYDL-------------ELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIG 295
           + L  ++                 L +     ++  +       ++        + + + 
Sbjct: 57  HELGVNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVM 116

Query: 296 GLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHE 355
            +    G     +        L  A  R G +   +   +   E  +      L      
Sbjct: 117 DIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMR 176

Query: 356 LFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEALKAAKEKAKKNAGEEAEL 415
               +G       +   + A   + +          +        A+   ++    E  L
Sbjct: 177 DARLLG-------VRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERAL 229

Query: 416 KA 417
           +A
Sbjct: 230 EA 231

>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 = 41.1 bits (95), Expect = 1e-04
 Identities = 36/213 (16%), Positives = 71/213 (33%), Gaps = 21/213 (9%)

Query: 189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMA 248
           P + D        +E +KK L    E     AK+        LL GPPG GK+T+   +A
Sbjct: 5   PKSLDEFIG----QENVKKKLSLALE----AAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 56

Query: 249 NCLNYDVYDLELTSVENNNELRSLLVDISSKKKKSNVTLSGLLNCIGGLWSTCGGERIIV 308
           + L  +++      +    ++ ++L    +  ++ +V     ++ +           I  
Sbjct: 57  SELQTNIHVTSGPVLVKQGDMAAIL----TSLERGDVLFIDEIHRLNKAVEELLYSAIED 112

Query: 309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETD 368
           F  + +    P+          I++         V A     + S  L    G +L    
Sbjct: 113 FQIDIMIGKGPSA-----KSIRIDIQPFTL----VGATTRSGLLSSPLRSRFGIILELDF 163

Query: 369 ITPADVAENLMPKSDEDDAGTCLKNLIEALKAA 401
            T  ++ E +   +   D            K +
Sbjct: 164 YTVKELKEIIKRAASLMDVEIEDAAAEMIAKRS 196

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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]

 Score = 41.2 bits (96), Expect = 2e-04
 Identities = 22/170 (12%), Positives = 48/170 (28%), Gaps = 36/170 (21%)

Query: 200 KKKEAIKKDLIKFTEGKE---YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVY 256
           +       DL     G           +      ++ G   +GK+ ++ A+   L     
Sbjct: 93  QGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDK 152

Query: 257 DLELTSVE----NNNELRSLLVDISSKKKKSNV------------------------TLS 288
              +   E     N +    + DI+    +  V                           
Sbjct: 153 YATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNVIGAAGGNTTSGGISRGAF 212

Query: 289 GLLNCIGGLWSTCGGERIIVFTTNHV---DKLDPALIRRGRMDKHIEMPY 335
            LL+ IG + ++ G   +++ + N     DK+   +    R +    +  
Sbjct: 213 DLLSDIGAMAASRG--CVVIASLNPTSNDDKIVELVKEASRSNSTSLVIS 260

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

 Score = 38.0 bits (87), Expect = 0.002
 Identities = 13/23 (56%), Positives = 16/23 (69%)

Query: 229 GYLLFGPPGTGKSTMIAAMANCL 251
           G L+FG  GTGKST + A+A  L
Sbjct: 30  GVLVFGDRGTGKSTAVRALAALL 52

>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 = 37.4 bits (85), Expect = 0.002
 Identities = 24/145 (16%), Positives = 42/145 (28%), Gaps = 2/145 (1%)

Query: 220 AKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLLVDISSK 279
            K+        L+ G   TGKS++I    N LN     L+L   E  N +     D   +
Sbjct: 22  EKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI--SYKDFLLE 79

Query: 280 KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFE 339
            +K    L   L  +        G  I+             L     ++   +       
Sbjct: 80  LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVI 139

Query: 340 AFKVLAKNYLEIESHELFHEIGSLL 364
                A+  +++    L   +    
Sbjct: 140 IVLDEAQELVKLRGVNLLPALAYAY 164

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	431
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.84
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.82
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.78
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.78
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.76
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.71
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.67
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.66
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.63
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.63
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.6
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.57
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.56
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.41
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.34
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.31
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.29
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.2
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.18
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.12
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.1
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.91
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.86
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.84
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.83
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.66
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.65
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.49
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.37
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.34
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.19
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.17
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.14
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.12
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.06
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	98.04
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.02
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.96
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.91
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.83
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.8
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.76
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.74
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.74
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.71
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.7
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.69
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.69
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.66
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.61
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.61
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.6
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.59
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.58
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.58
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.53
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.52
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.52
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.5
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.45
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.43
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.41
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.38
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.26
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.24
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.24
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.07
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.99
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.99
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.91
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.88
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.88
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.87
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.76
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.69
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.68
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.56
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.53
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.43
d1okkd2	207	GTPase domain of the signal recognition particle r	96.38
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.36
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.3
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.27
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.25
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.24
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.22
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.19
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.03
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.97
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.95
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.86
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.84
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.82
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.8
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.78
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.74
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.53
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.46
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.46
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.44
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.42
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.39
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.3
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.25
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.24
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.24
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.23
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.21
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.11
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.07
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.89
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.88
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.77
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.76
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.73
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.67
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.58
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.55
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.49
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.49
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.45
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.43
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.39
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.35
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.3
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.29
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.27
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.23
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.19
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.11
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.07
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.06
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.95
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.94
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.9
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.89
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.89
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.89
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.88
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.87
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.86
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.84
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.82
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.75
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.75
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.73
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.68
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.65
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.64
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.63
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.63
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.61
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.57
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.56
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.53
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.43
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	93.41
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.38
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.36
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.35
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.33
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.31
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.3
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.27
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.25
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.23
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	93.19
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.12
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.1
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.09
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.09
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.08
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.07
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.06
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.04
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.95
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	92.87
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.87
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.83
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.77
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.71
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.71
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.68
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.6
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.58
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.52
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.49
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.44
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.42
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.34
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.32
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.21
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	92.21
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.21
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.2
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.04
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.03
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.02
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.95
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.93
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.88
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	91.77
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.74
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.56
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.23
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	91.22
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.2
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	91.0
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	90.76
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	90.43
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.4
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.4
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	90.2
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	90.03
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.99
d1xpua3	289	Transcription termination factor Rho, ATPase domai	89.65
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.58
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	89.56
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	89.26
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	89.06
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.9
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	88.66
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	88.45
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.21
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.17
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	88.06
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	87.47
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.36
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	87.16
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	86.3
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	85.89
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	85.39
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	85.3
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.18
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	84.38
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	83.77
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	83.14
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	82.09
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	81.99
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	81.75
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	81.48
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.45
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	81.34
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	81.32
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	80.87
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	80.84
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	80.41

>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=100.00  E-value=8e-36  Score=284.08  Aligned_cols=189  Identities=21%  Similarity=0.322  Sum_probs=156.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      .+.||+||+|.+++|++|.+.+ .|+.+++.|+++|..+++|+|||||||||||++|++||++++.+++.++++++    
T Consensus         7 ~~~t~~Di~Gl~~~k~~l~e~v-~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~   85 (256)
T d1lv7a_           7 IKTTFADVAGCDEAKEEVAELV-EYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF   85 (256)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHH-HHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSC
T ss_pred             CCCCHHHHhchHHHHHHHHHHH-HHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcc
Confidence            4589999999999999998755 67889999999999999999999999999999999999999999999999887    


Q ss_pred             --CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        .+...++++|..+...                        .......++.||+.+|++...  .+++||+|||+|+.|
T Consensus        86 ~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~--~~v~vIatTn~~~~l  163 (256)
T d1lv7a_          86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRPDVL  163 (256)
T ss_dssp             CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS--SCEEEEEEESCTTTS
T ss_pred             hhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC--CCEEEEEeCCCcccC
Confidence              3457789999877554                        012235688999999999654  459999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      |||++||||||.+|+|++|+.++|..|++.++.........++..+++. .|||++||..++.
T Consensus       164 d~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~~  226 (256)
T d1lv7a_         164 DPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVN  226 (256)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999976544333446666664 4999999987775

>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=100.00  E-value=2.6e-35  Score=281.03  Aligned_cols=188  Identities=22%  Similarity=0.264  Sum_probs=161.0

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC-----
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE-----  264 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  264 (431)
                      .+|++|+|.+++|++|.+.+..++.+++.|.+.|+++++|+|||||||||||++++++|++++.+++.++++.+.     
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            479999999999999999999999999999999999999999999999999999999999999999999987652     


Q ss_pred             -ChHHHHHHHHHhhhc---------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhh
Q 035603          265 -NNNELRSLLVDISSK---------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALI  322 (431)
Q Consensus       265 -~~~~l~~l~~~~~~~---------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~All  322 (431)
                       +...++.+|..+...                     .......++.+++.+++....+  +++||+|||+++.||||++
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~--~vlvi~tTn~~~~ld~al~  158 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAATNRPNSIDPALR  158 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSS--CEEEEEEESCGGGSCGGGT
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccC--CccEEEeCCCccccchhhh
Confidence             245678888776544                     2233557888999999886544  4999999999999999999


Q ss_pred             ccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          323 RRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       323 RpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ||||||.+|++++|+.++|+.|++.++.........++..++.. .|||++||..++.
T Consensus       159 r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~  216 (258)
T d1e32a2         159 RFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCS  216 (258)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHH
T ss_pred             hcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHH
Confidence            99999999999999999999999999975433322346666664 4999999997765

>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=100.00  E-value=4.9e-35  Score=277.33  Aligned_cols=189  Identities=23%  Similarity=0.331  Sum_probs=158.7

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc----
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV----  263 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~----  263 (431)
                      |+.+|++|+|.+++|+.|.+ +..++.+++.|.++|.++++|+|||||||||||++|++||++++++++.++++.+    
T Consensus         4 p~~~~~di~G~~~~k~~l~~-~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~   82 (247)
T d1ixza_           4 PKVTFKDVAGAEEAKEELKE-IVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF   82 (247)
T ss_dssp             CSCCGGGCCSCHHHHHHHHH-HHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSC
T ss_pred             CCCcHHHHccHHHHHHHHHH-HHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhcc
Confidence            44799999999999999966 5678999999999999999999999999999999999999999999999998775    


Q ss_pred             --CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          264 --ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       264 --~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                        ++...++++|..+...                        .......++.||+.||++....  +++||+|||+++.|
T Consensus        83 ~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~--~vivi~tTn~~~~l  160 (247)
T d1ixza_          83 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT--AIVVMAATNRPDIL  160 (247)
T ss_dssp             TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC--CEEEEEEESCGGGS
T ss_pred             ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC--CEEEEEeCCCcccc
Confidence              2345688888776543                        1112347889999999986543  49999999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhcc-CCCCHHHHHHHhc
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGE-TDITPADVAENLM  379 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~adI~~~l~  379 (431)
                      ||+++||||||.+|+|++|+.++|++|++.++.........++..+++. .|||++||..++.
T Consensus       161 d~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv~  223 (247)
T d1ixza_         161 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLN  223 (247)
T ss_dssp             CGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999975443333345666664 4999999987765

>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=100.00  E-value=5e-34  Score=273.16  Aligned_cols=189  Identities=21%  Similarity=0.308  Sum_probs=153.5

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc-----
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV-----  263 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~-----  263 (431)
                      ..+|++|+|.+++|++|.+.+..|+.+++.|.+.|+++++|+|||||||||||++++++|++++++++.++++.+     
T Consensus         3 ~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~   82 (265)
T d1r7ra3           3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF   82 (265)
T ss_dssp             CCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccc
Confidence            369999999999999999999999999999999999999999999999999999999999999999999998765     


Q ss_pred             -CChHHHHHHHHHhhhc------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCC
Q 035603          264 -ENNNELRSLLVDISSK------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLD  318 (431)
Q Consensus       264 -~~~~~l~~l~~~~~~~------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  318 (431)
                       .+...++.+|..+...                        .......++.||+.+|++....  +++||+|||+++.||
T Consensus        83 ~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~--~v~vi~ttn~~~~ld  160 (265)
T d1r7ra3          83 GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK--NVFIIGATNRPDIID  160 (265)
T ss_dssp             TTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC--------CCEEEECCBSCTTTS
T ss_pred             cchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCC--CEEEEEeCCCchhCC
Confidence             2346688888776544                        0112346799999999997654  499999999999999


Q ss_pred             hhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhc-cCCCCHHHHHHHhc
Q 035603          319 PALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLG-ETDITPADVAENLM  379 (431)
Q Consensus       319 ~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~adI~~~l~  379 (431)
                      ||++||||||.+|++++|+.++|+.|++.++.........+++.++. +.|||++||..++.
T Consensus       161 ~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv~  222 (265)
T d1r7ra3         161 PAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQ  222 (265)
T ss_dssp             CGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHHH
T ss_pred             HHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999986432211112444544 34999999987765

>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=99.84  E-value=3.3e-20  Score=172.52  Aligned_cols=157  Identities=17%  Similarity=0.200  Sum_probs=119.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      +|.+|++++|++++++.|...+......       | ....++|||||||||||++|+++|++++++++.++........
T Consensus         4 RP~~~~divGqe~~~~~l~~~i~~~~~~-------~-~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~   75 (238)
T d1in4a2           4 RPKSLDEFIGQENVKKKLSLALEAAKMR-------G-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQG   75 (238)
T ss_dssp             SCSSGGGCCSCHHHHHHHHHHHHHHHHH-------T-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHH
T ss_pred             CCCcHHHcCChHHHHHHHHHHHHHHHhc-------C-CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHH
Confidence            6899999999999999998877654321       2 2345899999999999999999999999999999998887777


Q ss_pred             HHHHHHHHhhhc--------ccchhhHHHHHHHHhcCccc--------------CCCCceEEEEecCCCCCCChhhhccC
Q 035603          268 ELRSLLVDISSK--------KKKSNVTLSGLLNCIGGLWS--------------TCGGERIIVFTTNHVDKLDPALIRRG  325 (431)
Q Consensus       268 ~l~~l~~~~~~~--------~~~~~~~~s~lL~~ldg~~~--------------~~~~~~ivI~TTN~~~~Ld~AllRpG  325 (431)
                      .+...+......        +.........++..++....              ....++++|++||++..+++++++  
T Consensus        76 ~~~~~~~~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~--  153 (238)
T d1in4a2          76 DMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRS--  153 (238)
T ss_dssp             HHHHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHT--
T ss_pred             HHHHHHHhhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCcccccccee--
Confidence            777776654433        22223333444544432110              012357999999999999999999  


Q ss_pred             ceeEEEEcCCCCHHHHHHHHHHhhchhcc
Q 035603          326 RMDKHIEMPYCCFEAFKVLAKNYLEIESH  354 (431)
Q Consensus       326 Rfd~~I~~~~p~~~~r~~i~~~~l~~~~~  354 (431)
                      ||+..+.++.|+.+++..+++.+......
T Consensus       154 r~~~~~~~~~~~~~~~~~~l~~~~~~~~~  182 (238)
T d1in4a2         154 RFGIILELDFYTVKELKEIIKRAASLMDV  182 (238)
T ss_dssp             TCSEEEECCCCCHHHHHHHHHHHHHHTTC
T ss_pred             eeeEEEEecCCCHHHHHHHHHHhhhhccc
Confidence            99999999999999999999887765543

>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=99.82  E-value=2.3e-20  Score=175.61  Aligned_cols=149  Identities=17%  Similarity=0.167  Sum_probs=109.3

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC---C----h
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE---N----N  266 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~---~----~  266 (431)
                      .+++..+-.+.+.+++..+.....   .-...+++|+|||||||||||++|++||++++.+++.++.++..   .    .
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            356666667778888887776322   22234568999999999999999999999999999999876531   1    2


Q ss_pred             HHHHHHHHHhhhc--------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCc
Q 035603          267 NELRSLLVDISSK--------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGR  326 (431)
Q Consensus       267 ~~l~~l~~~~~~~--------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGR  326 (431)
                      ..++++|..+...                    ....+..+..|+..+|+... .+.+++||+|||+++.||++.++ +|
T Consensus        87 ~~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vi~tTn~~~~ld~~~~~-~r  164 (246)
T d1d2na_          87 QAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEMEML-NA  164 (246)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHHTTCT-TT
T ss_pred             hhhhhhhhhhhhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCc-cccceeeeeccCChhhccchhhc-Cc
Confidence            4577888777654                    12346678899999999854 34568999999999999976554 59


Q ss_pred             eeEEEEcCCCC-HHHHHHHHHH
Q 035603          327 MDKHIEMPYCC-FEAFKVLAKN  347 (431)
Q Consensus       327 fd~~I~~~~p~-~~~r~~i~~~  347 (431)
                      |+.+|++|.+. .+++..+++.
T Consensus       165 F~~~i~~P~~~~r~~il~~l~~  186 (246)
T d1d2na_         165 FSTTIHVPNIATGEQLLEALEL  186 (246)
T ss_dssp             SSEEEECCCEEEHHHHHHHHHH
T ss_pred             cceEEecCCchhHHHHHHHHHh
Confidence            99999996654 3444444433

>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=99.78  E-value=5.8e-22  Score=192.34  Aligned_cols=131  Identities=14%  Similarity=0.119  Sum_probs=104.2

Q ss_pred             HHHHhCCCCCceeEE-eCCCCCcHHHHHHHHHHHcC--CCeEEecccCcC------ChHHHHHHHHHhhhc---------
Q 035603          218 YYAKIGKAWKRGYLL-FGPPGTGKSTMIAAMANCLN--YDVYDLELTSVE------NNNELRSLLVDISSK---------  279 (431)
Q Consensus       218 ~~~~~g~~~~rg~LL-~GPPGtGKTsla~aiA~~l~--~~i~~l~~~~~~------~~~~l~~l~~~~~~~---------  279 (431)
                      .+..+|...++|+|| |||||||||++|+++|.+++  .+++.++.+++.      .+..++.+|..+...         
T Consensus       113 ~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~~~ilf~DEid  192 (321)
T d1w44a_         113 VAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLK  192 (321)
T ss_dssp             EEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCT
T ss_pred             HHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhhccEEEeehhh
Confidence            344556667788765 89999999999999999987  678999988862      457799999877544         


Q ss_pred             -----------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCC---CCCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          280 -----------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHV---DKLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       280 -----------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                                 .....+++++||..|||+.+..+  ++||+|||+.   +.||++++||||||++|++++|+.+.|.+|+
T Consensus       193 ~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~--v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il  270 (321)
T d1w44a_         193 NVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRG--CVVIASLNPTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVL  270 (321)
T ss_dssp             TTC-----------CCHHHHHHHHHHHHHHHHHT--CEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEE
T ss_pred             hhccccccCCCCCcchhhhhhhhhhccccccCCC--eEEEEeCCCcccccchhhhhhccCcccceeecCCCChHHHHHHH
Confidence                       22345789999999999976544  9999999952   3356667899999999999999999999888


Q ss_pred             HHhhc
Q 035603          346 KNYLE  350 (431)
Q Consensus       346 ~~~l~  350 (431)
                      +.+..
T Consensus       271 ~~~~~  275 (321)
T d1w44a_         271 TRTGE  275 (321)
T ss_dssp             EECBT
T ss_pred             HHhcc
Confidence            76653

>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=99.78  E-value=3.9e-18  Score=158.50  Aligned_cols=156  Identities=18%  Similarity=0.199  Sum_probs=113.9

Q ss_pred             CCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH
Q 035603          188 HPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN  267 (431)
Q Consensus       188 ~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  267 (431)
                      .|.+|++++|++++++.|...+......        ...+.++|||||||||||++|+++|+++++++..++.+......
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~~--------~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~   75 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKAR--------KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG   75 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTTS--------SSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccch
Confidence            5899999999999999988776544332        23456899999999999999999999999999999988876554


Q ss_pred             HHHHHHHHhhhc---------ccchhhHHHHHHHHhcCcc--------------cCCCCceEEEEecCCCCCCChhhhcc
Q 035603          268 ELRSLLVDISSK---------KKKSNVTLSGLLNCIGGLW--------------STCGGERIIVFTTNHVDKLDPALIRR  324 (431)
Q Consensus       268 ~l~~l~~~~~~~---------~~~~~~~~s~lL~~ldg~~--------------~~~~~~~ivI~TTN~~~~Ld~AllRp  324 (431)
                      .....+......         +.........++..++...              ......+++|++||++...+++.+| 
T Consensus        76 ~~~~~~~~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~-  154 (239)
T d1ixsb2          76 DLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLS-  154 (239)
T ss_dssp             HHHHHHHTTCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGG-
T ss_pred             hhHHHHHhhccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhc-
Confidence            444444333222         2233344445555543210              0112346888999999999989998 


Q ss_pred             CceeEEEEcCCCCHHHHHHHHHHhhchhc
Q 035603          325 GRMDKHIEMPYCCFEAFKVLAKNYLEIES  353 (431)
Q Consensus       325 GRfd~~I~~~~p~~~~r~~i~~~~l~~~~  353 (431)
                       |+...+.+..|+.+.+..++........
T Consensus       155 -~~~~~~~~~~~~~~~~~~i~~~~~~~~~  182 (239)
T d1ixsb2         155 -RFGIVEHLEYYTPEELAQGVMRDARLLG  182 (239)
T ss_dssp             -GCSEEEECCCCCHHHHHHHHHHHHGGGC
T ss_pred             -ccceeeEeeccChhhhhHHHHHHHHHhC
Confidence             7778899999999999999887765443

>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=99.76  E-value=4.6e-18  Score=158.79  Aligned_cols=162  Identities=18%  Similarity=0.233  Sum_probs=114.0

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHH----HHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKE----YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~----~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      .|.  .-..|.+|++|+|+++.+++|.+.+..+...+.    .+...|....+++|||||||||||++|+++|+++++++
T Consensus         3 lW~--eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~   80 (253)
T d1sxja2           3 LWT--VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDI   80 (253)
T ss_dssp             CHH--HHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEE
T ss_pred             ccc--cCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            465  446799999999999999999988877654222    11234556678999999999999999999999999999


Q ss_pred             EEecccCcCChHHHHHHHHHhhhc-------------------------------ccchhhHHHHHHHHhcCcccCCCCc
Q 035603          256 YDLELTSVENNNELRSLLVDISSK-------------------------------KKKSNVTLSGLLNCIGGLWSTCGGE  304 (431)
Q Consensus       256 ~~l~~~~~~~~~~l~~l~~~~~~~-------------------------------~~~~~~~~s~lL~~ldg~~~~~~~~  304 (431)
                      +.++.+...+...+...+......                               ..........++......    ...
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~----~~~  156 (253)
T d1sxja2          81 LEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT----STP  156 (253)
T ss_dssp             EEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC----SSC
T ss_pred             hccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccc----ccc
Confidence            999999887766665543222111                               112223344444443322    223


Q ss_pred             eEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          305 RIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       305 ~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      ++++++++....+++  +|  |+...|+|+.|+.++++.+++..+..
T Consensus       157 ii~i~~~~~~~~~~~--l~--~~~~~i~f~~~~~~~i~~~l~~i~~~  199 (253)
T d1sxja2         157 LILICNERNLPKMRP--FD--RVCLDIQFRRPDANSIKSRLMTIAIR  199 (253)
T ss_dssp             EEEEESCTTSSTTGG--GT--TTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccc--cc--ceeeeeeccccchhHHHHHHHHHHHH
Confidence            566666666666664  34  56689999999999999998887643

>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=99.71  E-value=1.4e-17  Score=161.43  Aligned_cols=154  Identities=16%  Similarity=0.182  Sum_probs=112.0

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHh-CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcC--------C
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKI-GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVE--------N  265 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~-g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~--------~  265 (431)
                      |+|+++.|+.|...+...++........ +-.+++|+||+||||||||+||++||++++.+++.++++.+.        .
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~   95 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEV   95 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGST
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeec
Confidence            7999999999988775543321111100 112458999999999999999999999999999999988762        3


Q ss_pred             hHHHHHHHHHhhhc------------------c-----c----chhhHHHHHHHHhcCcccCCC------CceEEEEe--
Q 035603          266 NNELRSLLVDISSK------------------K-----K----KSNVTLSGLLNCIGGLWSTCG------GERIIVFT--  310 (431)
Q Consensus       266 ~~~l~~l~~~~~~~------------------~-----~----~~~~~~s~lL~~ldg~~~~~~------~~~ivI~T--  310 (431)
                      ...++.+|..+...                  .     .    .....++.||..+||.....+      .++++|+|  
T Consensus        96 ~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~ga  175 (309)
T d1ofha_          96 DSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGA  175 (309)
T ss_dssp             THHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEEC
T ss_pred             cccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEeccc
Confidence            35677777665431                  0     0    012367789999998543222      12556665  


Q ss_pred             --cCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          311 --TNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       311 --TN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                        +|.++.++|++++  |||..+.++.|+...+++|++.+..
T Consensus       176 ~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~~~~  215 (309)
T d1ofha_         176 FQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPHA  215 (309)
T ss_dssp             CSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSSTT
T ss_pred             hhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHHHHH
Confidence              6788899999986  9999999999999999999877643

>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=99.67  E-value=3.2e-16  Score=144.58  Aligned_cols=152  Identities=18%  Similarity=0.197  Sum_probs=110.9

Q ss_pred             CcceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC-----C
Q 035603          179 KKWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN-----Y  253 (431)
Q Consensus       179 ~~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~-----~  253 (431)
                      ..|.  .--.|.+|++|+|.+++++.|...+..           +  ....+|||||||||||++|+++|++++     .
T Consensus        12 ~~w~--~ky~P~~~~diig~~~~~~~l~~~i~~-----------~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~   76 (231)
T d1iqpa2          12 KPWV--EKYRPQRLDDIVGQEHIVKRLKHYVKT-----------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRH   76 (231)
T ss_dssp             SCHH--HHTCCCSTTTCCSCHHHHHHHHHHHHH-----------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHH
T ss_pred             chHH--HHhCCCCHHHccCcHHHHHHHHHHHHc-----------C--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCC
Confidence            3574  666899999999999999887766531           1  123699999999999999999999875     3


Q ss_pred             CeEEecccCcCChHHHHHHHHHhhhc----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          254 DVYDLELTSVENNNELRSLLVDISSK----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       254 ~i~~l~~~~~~~~~~l~~l~~~~~~~----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                      +++.++.++..+...++..+......                +.........|+..++..    ...+++|++||++..+
T Consensus        77 ~~~e~n~s~~~~~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~----~~~~~~i~~~n~~~~i  152 (231)
T d1iqpa2          77 NFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF----SSNVRFILSCNYSSKI  152 (231)
T ss_dssp             HEEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT----TTTEEEEEEESCGGGS
T ss_pred             CeeEEecCcccchhHHHHHHHHHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccC----CcceEEEeccCChhhc
Confidence            67777777653333333333332211                233345566677777643    2347899999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      ++++.+  |+ ..|.++.|+.++...+++..+...
T Consensus       153 ~~~l~s--R~-~~i~~~~~~~~~~~~~l~~~~~~e  184 (231)
T d1iqpa2         153 IEPIQS--RC-AIFRFRPLRDEDIAKRLRYIAENE  184 (231)
T ss_dssp             CHHHHH--TE-EEEECCCCCHHHHHHHHHHHHHTT
T ss_pred             hHhHhC--cc-ccccccccchhhHHHHHHHHHHHh
Confidence            999998  77 469999999999999888877543

>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=99.66  E-value=8.9e-16  Score=142.87  Aligned_cols=174  Identities=19%  Similarity=0.234  Sum_probs=122.1

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-------------
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-------------  253 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-------------  253 (431)
                      -.|.+|++++|.+++++.|...+.    .       | ..+.++|||||||||||++|+++|++++.             
T Consensus         6 yrP~~~~dlig~~~~~~~L~~~i~----~-------~-~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~   73 (239)
T d1njfa_           6 WRPQTFADVVGQEHVLTALANGLS----L-------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   73 (239)
T ss_dssp             TCCSSGGGSCSCHHHHHHHHHHHH----T-------T-CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             hCCCCHHHccChHHHHHHHHHHHH----c-------C-CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccch
Confidence            368999999999999888765543    1       1 23568999999999999999999998754             


Q ss_pred             -----------CeEEecccCcCChHHHHHHHHHhhhc--------------ccchhhHHHHHHHHhcCcccCCCCceEEE
Q 035603          254 -----------DVYDLELTSVENNNELRSLLVDISSK--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIV  308 (431)
Q Consensus       254 -----------~i~~l~~~~~~~~~~l~~l~~~~~~~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI  308 (431)
                                 +++.++.++....+.++.++......              +.-.....+.|+..|+..    +....+|
T Consensus        74 ~~~~i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~----~~~~~~i  149 (239)
T d1njfa_          74 NCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP----PEHVKFL  149 (239)
T ss_dssp             HHHHHHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSC----CTTEEEE
T ss_pred             HHHHHHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcC----CCCeEEE
Confidence                       35566655544556677766554322              233456677899999843    3458899


Q ss_pred             EecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHHHHhcccCCCCCHH
Q 035603          309 FTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAG  388 (431)
Q Consensus       309 ~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~~~l~~~~~~~~~~  388 (431)
                      ++||.++++.+++.+  |+ ..|.++.|+.++.+.++.........             .+++..+..++..  ..+|++
T Consensus       150 l~tn~~~~i~~~i~S--Rc-~~i~~~~~~~~~i~~~l~~i~~~e~~-------------~~~~~~l~~i~~~--s~Gd~R  211 (239)
T d1njfa_         150 LATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHI-------------AHEPRALQLLARA--AEGSLR  211 (239)
T ss_dssp             EEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTC-------------CBCHHHHHHHHHH--TTTCHH
T ss_pred             EEcCCccccChhHhh--hh-cccccccCcHHHhhhHHHHHHhhhcc-------------CCCHHHHHHHHHH--cCCCHH
Confidence            999999999999998  55 67999999999888777666543221             3444444333322  346776


Q ss_pred             HHHHHH
Q 035603          389 TCLKNL  394 (431)
Q Consensus       389 ~~l~~l  394 (431)
                      .++..+
T Consensus       212 ~ain~l  217 (239)
T d1njfa_         212 DALSLT  217 (239)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666554

>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=99.63  E-value=6.7e-17  Score=159.65  Aligned_cols=134  Identities=19%  Similarity=0.143  Sum_probs=89.5

Q ss_pred             ChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChHHHHHHH----
Q 035603          198 ASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNNELRSLL----  273 (431)
Q Consensus       198 ~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~----  273 (431)
                      .+++++.+.+.+..++        .|+|.++++|||||||||||++|+++|+++|.+++.+++++..+...+....    
T Consensus       133 ~~~~~~~i~~~l~~~~--------~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l~~~~~~~~  204 (362)
T d1svma_         133 LPKMDSVVYDFLKCMV--------YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFL  204 (362)
T ss_dssp             STTHHHHHHHHHHHHH--------HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSC
T ss_pred             ccchHHHHHHHHHHHH--------hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHHHhHHHHHH
Confidence            4455666555444333        4789999999999999999999999999999999999988764333222211    


Q ss_pred             ---HHhhhc-----cc---chhhHHHHHHHHhcCcccCCCCc----------eEEEEecCCCCCCChhhhccCceeEEEE
Q 035603          274 ---VDISSK-----KK---KSNVTLSGLLNCIGGLWSTCGGE----------RIIVFTTNHVDKLDPALIRRGRMDKHIE  332 (431)
Q Consensus       274 ---~~~~~~-----~~---~~~~~~s~lL~~ldg~~~~~~~~----------~ivI~TTN~~~~Ld~AllRpGRfd~~I~  332 (431)
                         .++...     ..   ..-..+..|.+.+||....+.+.          ..+|+|||+   ++++++||||||+.|+
T Consensus       205 ~l~d~~~~~~~~~~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~~Rf~~~i~  281 (362)
T d1svma_         205 VVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQARFVKQID  281 (362)
T ss_dssp             EEETTCCCSTTTTTTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHHTTEEEEEE
T ss_pred             HHHHHHHHhhhhccCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---ccccccccccCceEEe
Confidence               111000     00   00123445666777643221110          138899995   5778889999999999


Q ss_pred             cCCCCHHHHH
Q 035603          333 MPYCCFEAFK  342 (431)
Q Consensus       333 ~~~p~~~~r~  342 (431)
                      ++.|+...+.
T Consensus       282 ~~~~~~~~~~  291 (362)
T d1svma_         282 FRPKDYLKHC  291 (362)
T ss_dssp             CCCCHHHHHH
T ss_pred             ecCCCcHHHH
Confidence            9999876664

>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=99.63  E-value=3.6e-15  Score=136.90  Aligned_cols=181  Identities=15%  Similarity=0.197  Sum_probs=126.5

Q ss_pred             cceeeeccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC-----C
Q 035603          180 KWSHVYFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY-----D  254 (431)
Q Consensus       180 ~w~~~~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~-----~  254 (431)
                      .|.  .--.|.+|++++|++++++.|.+.+.    .       +.  ...+|||||||||||++|+++|++++.     +
T Consensus         4 pw~--eKyrP~~~~d~ig~~~~~~~L~~~~~----~-------~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~   68 (224)
T d1sxjb2           4 PWV--EKYRPQVLSDIVGNKETIDRLQQIAK----D-------GN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADG   68 (224)
T ss_dssp             CHH--HHTCCSSGGGCCSCTHHHHHHHHHHH----S-------CC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             chH--hHhCCCCHHHhcCCHHHHHHHHHHHH----c-------CC--CCeEEEECCCCCCchhhHHHHHHHHhccccccc
Confidence            354  55789999999999999888766542    1       11  125999999999999999999999874     4


Q ss_pred             eEEecccCcCChHHHHHHHHHhhhc-----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC
Q 035603          255 VYDLELTSVENNNELRSLLVDISSK-----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL  317 (431)
Q Consensus       255 i~~l~~~~~~~~~~l~~l~~~~~~~-----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L  317 (431)
                      ++.++.++..+...+...+......                 +.........|+..++..    ....+++++||....+
T Consensus        69 ~~~~n~~~~~~~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~----~~~~~~i~~~~~~~~i  144 (224)
T d1sxjb2          69 VLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY----SNSTRFAFACNQSNKI  144 (224)
T ss_dssp             EEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT----TTTEEEEEEESCGGGS
T ss_pred             cccccccccCCceehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhcccc----ccceeeeeccCchhhh
Confidence            7788888776665555544333221                 233445556667766643    3458899999999999


Q ss_pred             ChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHH
Q 035603          318 DPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLKNLIEA  397 (431)
Q Consensus       318 d~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~~~l~~~~~~~~~~~~l~~l~~~  397 (431)
                      .+++++  |+ ..|.|+.|+.++...++...+..+.             ..+++..+..++..  ..+|++.++..+..+
T Consensus       145 ~~~l~s--r~-~~i~~~~~~~~~i~~~l~~i~~~e~-------------~~i~~~~l~~I~~~--s~Gd~R~ai~~Lq~~  206 (224)
T d1sxjb2         145 IEPLQS--QC-AILRYSKLSDEDVLKRLLQIIKLED-------------VKYTNDGLEAIIFT--AEGDMRQAINNLQST  206 (224)
T ss_dssp             CHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHT-------------CCBCHHHHHHHHHH--HTTCHHHHHHHHHHH
T ss_pred             hhHHHH--HH-HHhhhcccchhhhHHHHHHHHHhcc-------------cCCCHHHHHHHHHH--cCCcHHHHHHHHHHH
Confidence            999999  66 5699999999998888877664322             23455544433332  456777777666443

>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=99.60  E-value=8.6e-15  Score=134.31  Aligned_cols=148  Identities=24%  Similarity=0.293  Sum_probs=108.0

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC-----eEEec
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD-----VYDLE  259 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~-----i~~l~  259 (431)
                      .-..|.+|++|+|.+++++.|...+.    .       |..  ..+|||||||||||++|+++|++++..     ++..+
T Consensus         6 ekyrP~~~~divg~~~~~~~L~~~i~----~-------~~~--~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~   72 (227)
T d1sxjc2           6 EKYRPETLDEVYGQNEVITTVRKFVD----E-------GKL--PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN   72 (227)
T ss_dssp             HHTCCSSGGGCCSCHHHHHHHHHHHH----T-------TCC--CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC
T ss_pred             hhhCCCCHHHccCcHHHHHHHHHHHH----c-------CCC--CeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEec
Confidence            55689999999999998888766542    1       111  259999999999999999999997643     56666


Q ss_pred             ccCcCChHHHHHHHHHhhhc----------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhc
Q 035603          260 LTSVENNNELRSLLVDISSK----------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIR  323 (431)
Q Consensus       260 ~~~~~~~~~l~~l~~~~~~~----------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllR  323 (431)
                      .++..+.+............                +.......+.|+..|+..    ....+++++||.+..+++++++
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~----~~~~~~~~~~~~~~~i~~~i~s  148 (227)
T d1sxjc2          73 ASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERY----TKNTRFCVLANYAHKLTPALLS  148 (227)
T ss_dssp             TTSCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT----TTTEEEEEEESCGGGSCHHHHT
T ss_pred             ccccCCeeeeecchhhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhc----ccceeeccccCcHHHhHHHHHH
Confidence            66654444433333222211                334456678888888754    3458999999999999999998


Q ss_pred             cCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          324 RGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       324 pGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                        |+ ..+.|+.|+.++...++.+.+..+
T Consensus       149 --r~-~~i~~~~~~~~~i~~~l~~I~~~e  174 (227)
T d1sxjc2         149 --QC-TRFRFQPLPQEAIERRIANVLVHE  174 (227)
T ss_dssp             --TS-EEEECCCCCHHHHHHHHHHHHHTT
T ss_pred             --HH-hhhccccccccccccccccccccc
Confidence              65 578999999999888888766543

>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=99.57  E-value=2.8e-15  Score=139.34  Aligned_cols=148  Identities=13%  Similarity=0.168  Sum_probs=94.9

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC---eEEe---
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD---VYDL---  258 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~---i~~l---  258 (431)
                      ....|.+|++++|.+++++.|...    +..       +. ...++|||||||||||++|+++|+++..+   ...+   
T Consensus         3 eky~P~~~~diig~~~~~~~L~~~----~~~-------~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~   70 (252)
T d1sxje2           3 DKYRPKSLNALSHNEELTNFLKSL----SDQ-------PR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVR   70 (252)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTT----TTC-------TT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------
T ss_pred             cccCCCCHHHccCcHHHHHHHHHH----HHc-------CC-CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccc
Confidence            445799999999998887776543    222       11 12369999999999999999999986221   1111   


Q ss_pred             -----------------------cccCcCC--hHHHHHHHHHhhhc------------------------ccchhhHHHH
Q 035603          259 -----------------------ELTSVEN--NNELRSLLVDISSK------------------------KKKSNVTLSG  289 (431)
Q Consensus       259 -----------------------~~~~~~~--~~~l~~l~~~~~~~------------------------~~~~~~~~s~  289 (431)
                                             .......  ...+..........                        +.........
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~  150 (252)
T d1sxje2          71 QFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAA  150 (252)
T ss_dssp             ------------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHH
T ss_pred             cccccccchhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchh
Confidence                                   1111110  11111111111100                        1223445566


Q ss_pred             HHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhch
Q 035603          290 LLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEI  351 (431)
Q Consensus       290 lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~  351 (431)
                      |+..++..    ...+.+|+|||+++.+++++++  |+ ..|+|+.|+.++...+++..+..
T Consensus       151 l~~~~e~~----~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~i~~~  205 (252)
T d1sxje2         151 LRRTMEKY----SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTN  205 (252)
T ss_dssp             HHHHHHHS----TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHH
T ss_pred             hhcccccc----cccccceeeeccccchhhhhhc--ch-heeeecccchhhHHHHHHHHHHH
Confidence            77776633    4457899999999999999998  77 58999999999999888776543

>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=99.56  E-value=4e-14  Score=130.09  Aligned_cols=178  Identities=17%  Similarity=0.170  Sum_probs=117.1

Q ss_pred             eccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc------CCCeEEe
Q 035603          185 YFEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL------NYDVYDL  258 (431)
Q Consensus       185 ~~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l------~~~i~~l  258 (431)
                      .-..|.+|++|+|.+++++.|...+    ...         ....+||+||||||||++++++|+++      +...+.+
T Consensus         4 ~ky~P~~~~diig~~~~~~~l~~~i----~~~---------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~   70 (237)
T d1sxjd2           4 EKYRPKNLDEVTAQDHAVTVLKKTL----KSA---------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILEL   70 (237)
T ss_dssp             HHTCCSSTTTCCSCCTTHHHHHHHT----TCT---------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred             hhhCCCCHHHccCcHHHHHHHHHHH----HcC---------CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhe
Confidence            4467999999999999988776543    221         11259999999999999999999986      5667777


Q ss_pred             cccCcCChHHHHHHHHHhhhc--------------------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecC
Q 035603          259 ELTSVENNNELRSLLVDISSK--------------------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTN  312 (431)
Q Consensus       259 ~~~~~~~~~~l~~l~~~~~~~--------------------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN  312 (431)
                      +.+.......+...+......                          +.......+.++..++-.    ....++|.++|
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~----~~~~~~i~~~~  146 (237)
T d1sxjd2          71 NASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETY----SGVTRFCLICN  146 (237)
T ss_dssp             CSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHT----TTTEEEEEEES
T ss_pred             eccccccchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccc----ccccccccccc
Confidence            776654443332222211100                          122334455555555532    23478889999


Q ss_pred             CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhchhcchhHHHHHhHhccCCCCHHHHHHHhcccCCCCCHHHHHH
Q 035603          313 HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLEIESHELFHEIGSLLGETDITPADVAENLMPKSDEDDAGTCLK  392 (431)
Q Consensus       313 ~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~adI~~~l~~~~~~~~~~~~l~  392 (431)
                      ....+++++.+  |+ ..|.|+.|+.++...+++..+..+.             ..+++..+..+...  ..+|.+.++.
T Consensus       147 ~~~~~~~~l~s--r~-~~i~f~~~~~~~~~~~L~~i~~~e~-------------i~i~~~~l~~ia~~--s~gd~R~ai~  208 (237)
T d1sxjd2         147 YVTRIIDPLAS--QC-SKFRFKALDASNAIDRLRFISEQEN-------------VKCDDGVLERILDI--SAGDLRRGIT  208 (237)
T ss_dssp             CGGGSCHHHHH--HS-EEEECCCCCHHHHHHHHHHHHHTTT-------------CCCCHHHHHHHHHH--TSSCHHHHHH
T ss_pred             ccccccccccc--hh-hhhccccccccccchhhhhhhhhhc-------------CcCCHHHHHHHHHH--cCCCHHHHHH
Confidence            99999999998  66 6899999999998888876654321             13455444433332  3567777776


Q ss_pred             HHHHH
Q 035603          393 NLIEA  397 (431)
Q Consensus       393 ~l~~~  397 (431)
                      .+..+
T Consensus       209 ~L~~~  213 (237)
T d1sxjd2         209 LLQSA  213 (237)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            55433

>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=99.41  E-value=3e-12  Score=118.66  Aligned_cols=156  Identities=15%  Similarity=0.104  Sum_probs=97.9

Q ss_pred             ccCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC----CCeEEeccc
Q 035603          186 FEHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN----YDVYDLELT  261 (431)
Q Consensus       186 ~~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~----~~i~~l~~~  261 (431)
                      +.+-...+++++-++..+.|.+.+...+.++      | ..++++|||||||||||++++++|+.+.    ..++.+++.
T Consensus         9 l~~~y~p~~l~~Re~ei~~l~~~l~~~l~~~------~-~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~   81 (276)
T d1fnna2           9 FSPSYVPKRLPHREQQLQQLDILLGNWLRNP------G-HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGF   81 (276)
T ss_dssp             GSTTCCCSCCTTCHHHHHHHHHHHHHHHHST------T-SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHhCC------C-CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecch
Confidence            3333445678898888888888777666543      2 3467999999999999999999999874    445555554


Q ss_pred             CcCChHHH----------------------HHHHHH-hhhc-----------ccchhhHHHHHHHHhcCcccCCCCceEE
Q 035603          262 SVENNNEL----------------------RSLLVD-ISSK-----------KKKSNVTLSGLLNCIGGLWSTCGGERII  307 (431)
Q Consensus       262 ~~~~~~~l----------------------~~l~~~-~~~~-----------~~~~~~~~s~lL~~ldg~~~~~~~~~iv  307 (431)
                      .......+                      ...+.. ....           +.........+...++.........+++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (276)
T d1fnna2          82 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIAL  161 (276)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEE
T ss_pred             hhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEE
Confidence            43222111                      111111 1111           1122222333333333222223345778


Q ss_pred             EEecCCC---CCCChhhhccCce-eEEEEcCCCCHHHHHHHHHHhhc
Q 035603          308 VFTTNHV---DKLDPALIRRGRM-DKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       308 I~TTN~~---~~Ld~AllRpGRf-d~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      |+++|..   +.+++++.+  |+ ...|.|+.|+.++...|++..+.
T Consensus       162 i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~~~~~e~~~il~~r~~  206 (276)
T d1fnna2         162 VIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAK  206 (276)
T ss_dssp             EEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             eecCCchhhhhhcchhhhh--hhcchhccccchhHHHHHHHHHHHHH
Confidence            8888864   578899887  43 35689999999999999988764

>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=99.34  E-value=2.7e-11  Score=109.78  Aligned_cols=116  Identities=16%  Similarity=0.152  Sum_probs=85.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC------------------------CeEEecccCc---CChHHHHHHHHHhhh
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY------------------------DVYDLELTSV---ENNNELRSLLVDISS  278 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~------------------------~i~~l~~~~~---~~~~~l~~l~~~~~~  278 (431)
                      .+.++||+||||+|||++|+++|+++..                        +++.+....-   -..+.++++......
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~  102 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNE  102 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTS
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhh
Confidence            4568999999999999999999997732                        3333332221   123556666554332


Q ss_pred             c--------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCHHHHHHH
Q 035603          279 K--------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCFEAFKVL  344 (431)
Q Consensus       279 ~--------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i  344 (431)
                      .              +.......+.||..|+..    ...+++|++||++.+|.|++++  |. ..|.|+.|+.++...+
T Consensus       103 ~~~~~~~kviIide~d~l~~~a~n~Llk~lEep----~~~~~fIl~t~~~~~ll~tI~S--Rc-~~i~~~~~~~~~~~~~  175 (207)
T d1a5ta2         103 HARLGGAKVVWVTDAALLTDAAANALLKTLEEP----PAETWFFLATREPERLLATLRS--RC-RLHYLAPPPEQYAVTW  175 (207)
T ss_dssp             CCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHH
T ss_pred             ccccCccceEEechhhhhhhhhhHHHHHHHHhh----cccceeeeeecChhhhhhhhcc--ee-EEEecCCCCHHHHHHH
Confidence            2              344566788999999954    4569999999999999999998  66 7999999999888777


Q ss_pred             HHHh
Q 035603          345 AKNY  348 (431)
Q Consensus       345 ~~~~  348 (431)
                      ++.-
T Consensus       176 L~~~  179 (207)
T d1a5ta2         176 LSRE  179 (207)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            6543

>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=99.31  E-value=1.4e-12  Score=126.06  Aligned_cols=150  Identities=16%  Similarity=0.242  Sum_probs=105.4

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCc-eeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCcCChH---
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKR-GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSVENNN---  267 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~r-g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~---  267 (431)
                      ..|+|++++++.|...+......      +. ...|. .+||.||||||||.||++||..++.+++.++++.+....   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~------l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~   95 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAG------LGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVS   95 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTT------CSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCS
T ss_pred             CeecChHHHHHHHHHHHHHHHcc------CCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhh
Confidence            35789999999998877544321      11 11233 588999999999999999999999999999988763221   


Q ss_pred             ----------------HHHHHHHHhhhc-------ccchhhHHHHHHHHhcCccc--C-----CCCceEEEEecCCC---
Q 035603          268 ----------------ELRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWS--T-----CGGERIIVFTTNHV---  314 (431)
Q Consensus       268 ----------------~l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~--~-----~~~~~ivI~TTN~~---  314 (431)
                                      .+...+......       +..+....+.||+.+|.-.-  .     +-.+.|+|+|||--   
T Consensus        96 ~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~  175 (315)
T d1r6bx3          96 RLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRE  175 (315)
T ss_dssp             SSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-
T ss_pred             hhcccCCCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccchhhHH
Confidence                            122222222221       44556678888888864211  1     12347899999942   


Q ss_pred             ----------------------CCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          315 ----------------------DKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       315 ----------------------~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                            ..+.|.|+.  |+|..|.|.+.+.+....|+..++.
T Consensus       176 i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~I~~~~l~  231 (315)
T d1r6bx3         176 TERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  231 (315)
T ss_dssp             ----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHHHHHHHHH
Confidence                                  136788887  9999999999999999999887764

>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=99.29  E-value=3.6e-11  Score=111.88  Aligned_cols=152  Identities=13%  Similarity=0.045  Sum_probs=89.3

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---------CCeEEeccc
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---------YDVYDLELT  261 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---------~~i~~l~~~  261 (431)
                      ..+.+.+-++..+.|.+.+..++.+..    ........++||||||||||++++++|+++.         ..+..+++.
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~----~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGA----GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAF   89 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSS----CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGG
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCC----CCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccc
Confidence            346777878888888887766654311    0111122467899999999999999999863         233444444


Q ss_pred             CcCChH----------------------HHHHHHHHhhhc------------------ccchhh---HHHHHHHHhcCcc
Q 035603          262 SVENNN----------------------ELRSLLVDISSK------------------KKKSNV---TLSGLLNCIGGLW  298 (431)
Q Consensus       262 ~~~~~~----------------------~l~~l~~~~~~~------------------~~~~~~---~~s~lL~~ldg~~  298 (431)
                      ...+..                      .+.+.+......                  ......   .+..+++.+....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~  169 (287)
T d1w5sa2          90 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRD  169 (287)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTT
T ss_pred             cccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhh
Confidence            332221                      111222211111                  111112   2333444444443


Q ss_pred             cCCCCceEEEEecCCCCC------CChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          299 STCGGERIIVFTTNHVDK------LDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       299 ~~~~~~~ivI~TTN~~~~------Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                      ..  ....+|+.+|.++.      .++++.+  |++.+++|+.++.++..+|++..+.
T Consensus       170 ~~--~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~~  223 (287)
T d1w5sa2         170 GV--NRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAE  223 (287)
T ss_dssp             SC--CBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cc--cceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhHH
Confidence            22  23566666665543      3467777  8999999999999999999987654

>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=99.20  E-value=1.6e-11  Score=118.47  Aligned_cols=150  Identities=16%  Similarity=0.251  Sum_probs=106.7

Q ss_pred             cccccChhhHHHHHHHHHHHHhCHHHHHHhC-CCCCc-eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCcCChH
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGKEYYAKIG-KAWKR-GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSVENNN  267 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~r-g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~  267 (431)
                      +.|+|+++.++.|.+.+......      +. ...|. .+||+||||+|||.+|+++|..+   +.+++.+++++.....
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~------l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~   96 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAG------LKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH   96 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGG------CSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSG
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcC------CCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccch
Confidence            34689999999998877655321      11 11233 57888999999999999999998   7789999988764432


Q ss_pred             H-------------------HHHHHHHhhhc-------ccchhhHHHHHHHHhcCcccCC-------CCceEEEEecCC-
Q 035603          268 E-------------------LRSLLVDISSK-------KKKSNVTLSGLLNCIGGLWSTC-------GGERIIVFTTNH-  313 (431)
Q Consensus       268 ~-------------------l~~l~~~~~~~-------~~~~~~~~s~lL~~ldg~~~~~-------~~~~ivI~TTN~-  313 (431)
                      .                   |.+.+......       +.......+.|+..+|.-....       -.+.++|+|||- 
T Consensus        97 ~~~~L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnlG  176 (315)
T d1qvra3          97 AVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLG  176 (315)
T ss_dssp             GGGGC--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTT
T ss_pred             hhhhhcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEecccC
Confidence            2                   22222222111       4455677888888887532211       135799999994 


Q ss_pred             -------------------------CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhhc
Q 035603          314 -------------------------VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYLE  350 (431)
Q Consensus       314 -------------------------~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l~  350 (431)
                                               .+.+.|.++.  |||..|.|.+.+.+....|+...+.
T Consensus       177 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~~l~  236 (315)
T d1qvra3         177 SPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLS  236 (315)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             hHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHHHHH
Confidence                                     3568999999  9999999999999999999887764

>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=99.18  E-value=7.1e-11  Score=114.31  Aligned_cols=141  Identities=22%  Similarity=0.219  Sum_probs=89.3

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCC---------------
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNY---------------  253 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~---------------  253 (431)
                      +..|.+|+|++.+|..|.-.+...             -..++||+||||||||++|+++|.-|.-               
T Consensus         3 ~~~f~~I~Gq~~~kral~laa~~~-------------~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~   69 (333)
T d1g8pa_           3 VFPFSAIVGQEDMKLALLLTAVDP-------------GIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVE   69 (333)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCG-------------GGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGG
T ss_pred             CCChhhccCcHHHHHHHHHHHhcc-------------CCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccc
Confidence            357999999999998765332110             1237999999999999999999987621               


Q ss_pred             ------------------CeEEecccCcCChHHH------HHHHHH------------hhhc-------ccchhhHHHHH
Q 035603          254 ------------------DVYDLELTSVENNNEL------RSLLVD------------ISSK-------KKKSNVTLSGL  290 (431)
Q Consensus       254 ------------------~i~~l~~~~~~~~~~l------~~l~~~------------~~~~-------~~~~~~~~s~l  290 (431)
                                        +++.....  .+...+      ...+..            +...       ......+++.|
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aL  147 (333)
T d1g8pa_          70 MIPDWATVLSTNVIRKPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLL  147 (333)
T ss_dssp             GSCTTCCCSCCCEEEECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHH
T ss_pred             cccchhhccccCcccccCceeeccCC--CCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHH
Confidence                              11111000  011111      111111            1111       34567788999


Q ss_pred             HHHhcC---------cccCCCCceEEEEecCCC-CCCChhhhccCceeEEEEcCCCC-HHHHHHHHH
Q 035603          291 LNCIGG---------LWSTCGGERIIVFTTNHV-DKLDPALIRRGRMDKHIEMPYCC-FEAFKVLAK  346 (431)
Q Consensus       291 L~~ldg---------~~~~~~~~~ivI~TTN~~-~~Ld~AllRpGRfd~~I~~~~p~-~~~r~~i~~  346 (431)
                      +..|+.         .........++|+|+|.. ..|+++++.  |||.+|.+++|. .+.+..+..
T Consensus       148 l~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~~~  212 (333)
T d1g8pa_         148 LDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIR  212 (333)
T ss_dssp             HHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHH
T ss_pred             hhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHHHH
Confidence            999962         222222347889999954 579999999  999999999984 455554443

>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=99.12  E-value=5.8e-10  Score=109.33  Aligned_cols=154  Identities=21%  Similarity=0.223  Sum_probs=103.1

Q ss_pred             cccccChhhHHHHHHHHHHHHhCH---H---------------HHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          193 DTLAMASKKKEAIKKDLIKFTEGK---E---------------YYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       193 ~~l~g~~~~k~~i~~~l~~~~~~~---~---------------~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ..|+|+++.|+.+-..+..-.++.   .               .+....+| +..+||.||+|||||.||++||..++.+
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p-~~niLfiGPTGvGKTElAk~LA~~~~~~   95 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELS-KSNILLIGPTGSGKTLMAQTLAKHLDIP   95 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCC-CCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCC-CcceeeeCCCCccHHHHHHHHHhhcccc
Confidence            347999999999877664322211   1               11112333 5689999999999999999999999999


Q ss_pred             eEEecccCcCC--------hHHHHHHHHHhhhc----------------------------ccchhhHHHHHHHHhcCcc
Q 035603          255 VYDLELTSVEN--------NNELRSLLVDISSK----------------------------KKKSNVTLSGLLNCIGGLW  298 (431)
Q Consensus       255 i~~l~~~~~~~--------~~~l~~l~~~~~~~----------------------------~~~~~~~~s~lL~~ldg~~  298 (431)
                      ++.++++.+..        ...+.+++..+...                            +.......+.||+.+|+-.
T Consensus        96 ~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~  175 (364)
T d1um8a_          96 IAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSL  175 (364)
T ss_dssp             EEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCE
T ss_pred             eeehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCce
Confidence            99999987633        34566665544322                            1133457888999998621


Q ss_pred             c---------CCCCceEEEEecCC-------------------------------------------------CCCCChh
Q 035603          299 S---------TCGGERIIVFTTNH-------------------------------------------------VDKLDPA  320 (431)
Q Consensus       299 ~---------~~~~~~ivI~TTN~-------------------------------------------------~~~Ld~A  320 (431)
                      .         ....+.++|+|+|-                                                 +..+.|.
T Consensus       176 ~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PE  255 (364)
T d1um8a_         176 VNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPE  255 (364)
T ss_dssp             EC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHH
T ss_pred             eccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHH
Confidence            1         11234577777775                                                 1135677


Q ss_pred             hhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          321 LIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       321 llRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      |+-  |+|..|.|...+.+....|+....
T Consensus       256 f~g--Ri~~iv~f~~L~~~~l~~Il~~~~  282 (364)
T d1um8a_         256 LIG--RLPVLSTLDSISLEAMVDILQKPK  282 (364)
T ss_dssp             HHT--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             HHH--HhcchhhHhhhhHHHHHHHHHHHH
Confidence            766  999999999999999999986543

>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=99.10  E-value=1.1e-11  Score=115.44  Aligned_cols=59  Identities=20%  Similarity=0.345  Sum_probs=47.0

Q ss_pred             hhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          200 KKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       200 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ++++.+.+.+..+....     .+...|+|||||||||||||++|++||++++.+++.++.+.+
T Consensus        10 ~~~~~~~~~~~~~~~~~-----~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~   68 (273)
T d1gvnb_          10 QFENRLNDNLEELIQGK-----KAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   68 (273)
T ss_dssp             HHHHHHHHHHHHHHTTC-----CCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----cCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHH
Confidence            44555555555555532     366778999999999999999999999999999999987654

>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=98.91  E-value=6.8e-09  Score=94.02  Aligned_cols=153  Identities=16%  Similarity=0.159  Sum_probs=82.8

Q ss_pred             CCCCccccc-cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          188 HPATFDTLA-MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       188 ~p~~f~~l~-g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      +..||++.+ |....  .....+..+...+      |. .-..++||||||||||.|++|+|+++   +..++.++....
T Consensus         5 ~~~tFdnF~vg~~N~--~a~~~~~~~~~~~------~~-~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~   75 (213)
T d1l8qa2           5 PKYTLENFIVGEGNR--LAYEVVKEALENL------GS-LYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDF   75 (213)
T ss_dssp             TTCCSSSCCCCTTTH--HHHHHHHHHHHTT------TT-SCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCCChhhccCCCcHH--HHHHHHHHHHhCc------CC-CCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHH
Confidence            347899954 44321  1223333333322      22 23469999999999999999999986   455666655443


Q ss_pred             CCh-------HHHHHHHHHhhhc-----c-----cchhhHHHHHHHHhcCcccCCCCceEEEEecCCCCCC---Chhhhc
Q 035603          264 ENN-------NELRSLLVDISSK-----K-----KKSNVTLSGLLNCIGGLWSTCGGERIIVFTTNHVDKL---DPALIR  323 (431)
Q Consensus       264 ~~~-------~~l~~l~~~~~~~-----~-----~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~L---d~AllR  323 (431)
                      ...       .....++......     +     ......-..|.+.++.+...  +..+||.+...|..+   .|.|..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~--~~~iiits~~~p~~l~~~~~dL~S  153 (213)
T d1l8qa2          76 AQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLL--EKQIILASDRHPQKLDGVSDRLVS  153 (213)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHT--TCEEEEEESSCGGGCTTSCHHHHH
T ss_pred             HHHHHHHHHccchhhHHHHHhhccchhhhhhhhhcCchHHHHHHHHHHHHHhhc--cceEEEecCCcchhccccchHHHH
Confidence            100       0011111111111     1     11223334455555544332  336666666677544   477876


Q ss_pred             cCceeEEEEcCCCCHHHHHHHHHHhhchh
Q 035603          324 RGRMDKHIEMPYCCFEAFKVLAKNYLEIE  352 (431)
Q Consensus       324 pGRfd~~I~~~~p~~~~r~~i~~~~l~~~  352 (431)
                      +-+--..+.++ |+.+.+..+++.+....
T Consensus       154 RL~~g~~~~i~-p~d~~~~~iL~~~a~~r  181 (213)
T d1l8qa2         154 RFEGGILVEIE-LDNKTRFKIIKEKLKEF  181 (213)
T ss_dssp             HHHTSEEEECC-CCHHHHHHHHHHHHHHT
T ss_pred             HhhCceEEEEC-CCcHHHHHHHHHHHHHc
Confidence            21224677786 66788888888877543

>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=98.86  E-value=5.7e-09  Score=93.49  Aligned_cols=105  Identities=11%  Similarity=0.127  Sum_probs=80.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC------CCeEEecccCcC-ChHHHHHHHHHhhhc--------------ccchhh
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN------YDVYDLELTSVE-NNNELRSLLVDISSK--------------KKKSNV  285 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~------~~i~~l~~~~~~-~~~~l~~l~~~~~~~--------------~~~~~~  285 (431)
                      +..+|||||||||||++|..+|++..      .+++.++...-. +-+.++++.......              +.-...
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~~~   94 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ   94 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCccccchh
Confidence            55899999999999999999999764      257777764322 457788776554332              344567


Q ss_pred             HHHHHHHHhcCcccCCCCceEEEEecCCCCCCChhhhccCceeEEEEcCCCCH
Q 035603          286 TLSGLLNCIGGLWSTCGGERIIVFTTNHVDKLDPALIRRGRMDKHIEMPYCCF  338 (431)
Q Consensus       286 ~~s~lL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~AllRpGRfd~~I~~~~p~~  338 (431)
                      ..+.||..|+.    ++...++|++||+++.|.|+++.  |. ..+.++.|..
T Consensus        95 aqNaLLK~LEE----Pp~~t~fiLit~~~~~ll~TI~S--RC-~~i~~~~p~~  140 (198)
T d2gnoa2          95 AANAFLKALEE----PPEYAVIVLNTRRWHYLLPTIKS--RV-FRVVVNVPKE  140 (198)
T ss_dssp             HHHHTHHHHHS----CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCHH
T ss_pred             hhhHHHHHHhC----CCCCceeeeccCChhhCHHHHhc--ce-EEEeCCCchH
Confidence            78899999984    45568999999999999999998  54 6788887753

>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=98.84  E-value=2.1e-09  Score=107.93  Aligned_cols=70  Identities=19%  Similarity=0.213  Sum_probs=52.1

Q ss_pred             ccccChhhHHHHHHHHHHHHhCHHHHH-HhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          194 TLAMASKKKEAIKKDLIKFTEGKEYYA-KIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       194 ~l~g~~~~k~~i~~~l~~~~~~~~~~~-~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      -|+|+++.|+.|--.+....++...-. ...-..|.++||.||||||||.||++||+.++.||+.++++.+
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~f   85 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   85 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGG
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeeccee
Confidence            379999999998766644332110000 0011236799999999999999999999999999999999887

>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=98.83  E-value=3.2e-08  Score=92.43  Aligned_cols=140  Identities=22%  Similarity=0.281  Sum_probs=89.5

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH----------cCCCeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC----------LNYDVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~----------l~~~i~~l~~~  261 (431)
                      ++.++|-++-.++|.+.+    .         ...+..+||.||||+|||++++.+|..          .+..++.++++
T Consensus        17 ld~~igRd~Ei~~l~~iL----~---------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~   83 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVL----C---------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG   83 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHH----T---------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC
T ss_pred             CCcccChHHHHHHHHHHH----h---------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec
Confidence            455667665545444322    2         234578999999999999999999975          35679999987


Q ss_pred             CcCC--------hHHHHHHHHHhhhc---------------ccchhhHHHHHHHHhcCcccCCCCceEEEEecC-----C
Q 035603          262 SVEN--------NNELRSLLVDISSK---------------KKKSNVTLSGLLNCIGGLWSTCGGERIIVFTTN-----H  313 (431)
Q Consensus       262 ~~~~--------~~~l~~l~~~~~~~---------------~~~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN-----~  313 (431)
                      .+-.        ...+..++.+....               .+.+...-..+-+.|...-+  .+++-+|++|.     .
T Consensus        84 ~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          84 SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHC
T ss_pred             hHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHH
Confidence            7621        24566677665443               01111112233444443332  24477777766     3


Q ss_pred             CCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          314 VDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       314 ~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                      ...-||||.|  || ..|.+..|+.++-..|+..+.
T Consensus       162 ~~e~d~al~r--rF-~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         162 IFEKDRALAR--RF-QKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCTTSSGG--GE-EEEECCCCCHHHHHHHHHHHH
T ss_pred             HHhhcHHHHh--hh-cccccCCCCHHHHHHHHHHhh
Confidence            3466999999  99 579999999998888887644

>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=98.66  E-value=2.2e-08  Score=89.06  Aligned_cols=132  Identities=19%  Similarity=0.260  Sum_probs=81.1

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHc----------CCCeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCL----------NYDVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l----------~~~i~~l~~~  261 (431)
                      ++.++|-++..+++.+.    +.         ...+..+||.||||+|||++++.+|...          +..++.+|.+
T Consensus        21 ld~~igRd~Ei~~l~~i----L~---------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~   87 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQV----LQ---------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG   87 (195)
T ss_dssp             SCCCCSCHHHHHHHHHH----HT---------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH
T ss_pred             CCCCcCcHHHHHHHHHH----Hh---------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH
Confidence            45566766555554332    22         2345689999999999999999999743          5789999987


Q ss_pred             CcCC--------hHHHHHHHHHhhhc--------c----------cchhhHH-HHHHHHhcCcccCCCCceEEEEecCCC
Q 035603          262 SVEN--------NNELRSLLVDISSK--------K----------KKSNVTL-SGLLNCIGGLWSTCGGERIIVFTTNHV  314 (431)
Q Consensus       262 ~~~~--------~~~l~~l~~~~~~~--------~----------~~~~~~~-s~lL~~ldg~~~~~~~~~ivI~TTN~~  314 (431)
                      .+-.        ...+..++.+....        +          ....... +-|.-.|.      .+++-+|+||...
T Consensus        88 ~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~------rg~l~~IgatT~e  161 (195)
T d1jbka_          88 ALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA------RGELHCVGATTLD  161 (195)
T ss_dssp             HHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH------TTSCCEEEEECHH
T ss_pred             HHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh------CCCceEEecCCHH
Confidence            7521        23466677665322        0          0001111 22222322      1335666665522


Q ss_pred             -----CCCChhhhccCceeEEEEcCCCCHHHHHHHH
Q 035603          315 -----DKLDPALIRRGRMDKHIEMPYCCFEAFKVLA  345 (431)
Q Consensus       315 -----~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~  345 (431)
                           -.-||||.|  || ..|.+.-|+.++-..|+
T Consensus       162 ey~~~~e~d~aL~r--rF-~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALER--RF-QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHT--TE-EEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHcCHHHHh--cC-CEeecCCCCHHHHHHHh
Confidence                 245999999  99 47999999988765543

>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=98.65  E-value=1.8e-07  Score=85.61  Aligned_cols=57  Identities=26%  Similarity=0.206  Sum_probs=44.5

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccCc
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTSV  263 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~~  263 (431)
                      ..-++++|=++..+.|.+                 ..++.++|+||||+|||+|++.++..++..+..+++...
T Consensus         9 ~~~~~f~GR~~el~~l~~-----------------~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~   65 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKG-----------------LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKF   65 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHH-----------------TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             CChhhCCChHHHHHHHHh-----------------ccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccc
Confidence            445788887766555432                 135789999999999999999999999998888776544

>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=98.49  E-value=6.6e-07  Score=87.68  Aligned_cols=136  Identities=19%  Similarity=0.313  Sum_probs=78.6

Q ss_pred             ccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHH----------cCCCeEEeccc
Q 035603          192 FDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANC----------LNYDVYDLELT  261 (431)
Q Consensus       192 f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~----------l~~~i~~l~~~  261 (431)
                      ++-++|-++-.+.+++.+    .         ...+...||.||||+|||.++..+|..          .+..++.++++
T Consensus        21 ld~~~gr~~ei~~~~~~L----~---------r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~   87 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQIL----L---------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG   87 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHH----H---------CSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-
T ss_pred             CCCCcCcHHHHHHHHHHH----h---------cCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHh
Confidence            445667665555554432    2         123557899999999999999999874          24679999988


Q ss_pred             CcCC--------hHHHHHHHHHhhhc--------cc----------chhhHHHHHHHHhcCcccCCCCceEEEEecC---
Q 035603          262 SVEN--------NNELRSLLVDISSK--------KK----------KSNVTLSGLLNCIGGLWSTCGGERIIVFTTN---  312 (431)
Q Consensus       262 ~~~~--------~~~l~~l~~~~~~~--------~~----------~~~~~~s~lL~~ldg~~~~~~~~~ivI~TTN---  312 (431)
                      .+..        ...+..++.+....        +.          ........+|.-   .-+ .| ++-+|++|.   
T Consensus        88 ~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp---~L~-rg-~~~~I~~tT~~e  162 (387)
T d1qvra2          88 SLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKP---ALA-RG-ELRLIGATTLDE  162 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HH---HHH-TT-CCCEEEEECHHH
T ss_pred             hhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHH---HHh-CC-CcceeeecCHHH
Confidence            7732        23466666655332        00          011111222221   111 22 344555544   


Q ss_pred             --CCCCCChhhhccCceeEEEEcCCCCHHHHHHHHHHhh
Q 035603          313 --HVDKLDPALIRRGRMDKHIEMPYCCFEAFKVLAKNYL  349 (431)
Q Consensus       313 --~~~~Ld~AllRpGRfd~~I~~~~p~~~~r~~i~~~~l  349 (431)
                        ..+. |+||.|  ||. .|.++.|+.++-..|++...
T Consensus       163 y~~~e~-d~al~r--rF~-~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         163 YREIEK-DPALER--RFQ-PVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHTT-CTTTCS--CCC-CEEECCCCHHHHHHHHHHHH
T ss_pred             HHHhcc-cHHHHH--hcc-cccCCCCcHHHHHHHHHHHH
Confidence              2345 999999  995 79999999998888877544

>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=98.37  E-value=2.3e-06  Score=78.63  Aligned_cols=68  Identities=18%  Similarity=0.217  Sum_probs=48.7

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC---CCeEEecccCcCChHHHHH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN---YDVYDLELTSVENNNELRS  271 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~  271 (431)
                      .+|.+...+.+.+.+......           ...+||+||||||||.+|++|.....   .+++.+++..+........
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~-----------~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~   70 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCA-----------ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAE   70 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTC-----------CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHH
Confidence            356677777777766655443           34699999999999999999987654   3678888887754443444


Q ss_pred             HH
Q 035603          272 LL  273 (431)
Q Consensus       272 l~  273 (431)
                      +|
T Consensus        71 lf   72 (247)
T d1ny5a2          71 LF   72 (247)
T ss_dssp             HH
T ss_pred             hc
Confidence            44

>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=98.34  E-value=1.1e-07  Score=79.87  Aligned_cols=33  Identities=45%  Similarity=0.721  Sum_probs=29.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++.|+|.|||||||||+|++||..|++++++.+
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            467999999999999999999999999998654

>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=98.19  E-value=3.4e-07  Score=78.49  Aligned_cols=34  Identities=18%  Similarity=0.177  Sum_probs=30.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+-|++.|||||||||||++||..+|.+++..+.
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            4679999999999999999999999998876543

>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=98.17  E-value=3.9e-07  Score=77.61  Aligned_cols=30  Identities=30%  Similarity=0.472  Sum_probs=27.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.|||||||||+|++||..+|++++++
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            478999999999999999999999998864

>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=98.14  E-value=1.2e-06  Score=74.69  Aligned_cols=35  Identities=34%  Similarity=0.395  Sum_probs=31.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      ++-++|.|||||||||+++++|..+|.+++.++..
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d   38 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSD   38 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHH
Confidence            35688999999999999999999999999988653

>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=98.12  E-value=5.9e-07  Score=76.96  Aligned_cols=31  Identities=32%  Similarity=0.461  Sum_probs=29.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .++|.||||+||||+++++|..+|+++++++
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            5889999999999999999999999999865

>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=98.06  E-value=9.1e-07  Score=76.21  Aligned_cols=32  Identities=25%  Similarity=0.488  Sum_probs=29.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +.++|.|||||||||+++.+|..||+++++.|
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            46889999999999999999999999999865

>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=98.04  E-value=1.1e-06  Score=75.21  Aligned_cols=30  Identities=37%  Similarity=0.587  Sum_probs=27.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      ++|.|||||||||+++.+|..+|++|+++|
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            556699999999999999999999999875

>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=98.02  E-value=1.9e-06  Score=73.34  Aligned_cols=34  Identities=21%  Similarity=0.300  Sum_probs=30.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++-|+|.||||+||||+|++||..++.+++.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            4678999999999999999999999998877653

>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=97.96  E-value=2.1e-06  Score=72.97  Aligned_cols=34  Identities=29%  Similarity=0.494  Sum_probs=29.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      ++-++|.|||||||||++++||..+++.++..+.
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d~   39 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDF   39 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeechhh
Confidence            4567899999999999999999999988876553

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.91  E-value=2.7e-06  Score=71.88  Aligned_cols=29  Identities=38%  Similarity=0.668  Sum_probs=26.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +-++|.|||||||||+|++||..++..++
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            46899999999999999999999987654

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.83  E-value=6.5e-06  Score=69.94  Aligned_cols=29  Identities=34%  Similarity=0.465  Sum_probs=25.3

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      |.+.-++|.||||+||||+++.||..++.
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            44455999999999999999999999974

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=4.2e-06  Score=71.27  Aligned_cols=24  Identities=46%  Similarity=0.821  Sum_probs=22.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |.++|+||||||||+|+++++..+
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            679999999999999999999876

>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=97.76  E-value=6.6e-06  Score=70.81  Aligned_cols=29  Identities=24%  Similarity=0.407  Sum_probs=26.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.|||||||||+|+.||..+|+..+..
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            78999999999999999999999887754

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.74  E-value=6.8e-06  Score=71.78  Aligned_cols=33  Identities=21%  Similarity=0.344  Sum_probs=28.4

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.|.-++|.||||+||||+|+.||.++|+..+.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            345678999999999999999999999987654

>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=97.74  E-value=4.7e-06  Score=72.67  Aligned_cols=31  Identities=16%  Similarity=0.235  Sum_probs=27.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      |.-++|.|||||||||+|+.||..+|+..+.
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            3458999999999999999999999988764

>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=97.71  E-value=8.8e-06  Score=70.30  Aligned_cols=29  Identities=38%  Similarity=0.596  Sum_probs=26.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.|||||||||+|+.||..+|+..+..
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            78899999999999999999999887764

>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=97.70  E-value=0.002  Score=59.20  Aligned_cols=168  Identities=13%  Similarity=0.049  Sum_probs=83.4

Q ss_pred             cccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHHHcC----CC---eEEecccCcCChH
Q 035603          195 LAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMANCLN----YD---VYDLELTSVENNN  267 (431)
Q Consensus       195 l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~~l~----~~---i~~l~~~~~~~~~  267 (431)
                      +.|-+.-.+.|.+.+...-.          ...+-+.|||++|+|||+||+.+.++..    ..   ++.++.+...+..
T Consensus        22 ~~gR~~~~~~i~~~L~~~~~----------~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~   91 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEMCD----------LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS   91 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHHTT----------SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTH
T ss_pred             eeCcHHHHHHHHHHHHhccC----------CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHH
Confidence            45666666666665543221          1234678999999999999999988632    21   3345544433333


Q ss_pred             HHHHHHHHhh----hc---------ccchhhHHHHHHH----------HhcCcccCC------CCceEEEEecCCCCCCC
Q 035603          268 ELRSLLVDIS----SK---------KKKSNVTLSGLLN----------CIGGLWSTC------GGERIIVFTTNHVDKLD  318 (431)
Q Consensus       268 ~l~~l~~~~~----~~---------~~~~~~~~s~lL~----------~ldg~~~~~------~~~~ivI~TTN~~~~Ld  318 (431)
                      .+...+....    ..         ..........++.          .+|.+|...      ..+.-||.||...    
T Consensus        92 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~~~srilvTTR~~----  167 (277)
T d2a5yb3          92 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDV----  167 (277)
T ss_dssp             HHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBG----
T ss_pred             HHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcccCceEEEEeehH----
Confidence            3332222111    11         0111111111221          235444310      1123456666543    


Q ss_pred             hhhhccCcee-EEEEcCCCCHHHHHHHHHHhhchhcc-hhHHH-HHhHhccCCCCHHHHHHH
Q 035603          319 PALIRRGRMD-KHIEMPYCCFEAFKVLAKNYLEIESH-ELFHE-IGSLLGETDITPADVAEN  377 (431)
Q Consensus       319 ~AllRpGRfd-~~I~~~~p~~~~r~~i~~~~l~~~~~-~~~~~-i~~l~~~~~~s~adI~~~  377 (431)
                       .+.....-+ ..+++...+.++-.+++..+-..... +..++ ..++++..|-.|--|.-+
T Consensus       168 -~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~i  228 (277)
T d2a5yb3         168 -EISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  228 (277)
T ss_dssp             -GGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -HHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHH
Confidence             222211112 35788899999888898776432221 11222 345555555567666533

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=3e-06  Score=73.54  Aligned_cols=30  Identities=27%  Similarity=0.269  Sum_probs=25.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ..|+|+|+||+||||+|++||..++..++.
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l~~~~~~   49 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYLVCHGIP   49 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            456799999999999999999998765443

>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=97.69  E-value=4.6e-06  Score=70.91  Aligned_cols=26  Identities=27%  Similarity=0.338  Sum_probs=23.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .|+|.|+||+||||+|++||..|+..
T Consensus         8 ~I~l~G~~GsGKTTia~~La~~L~~~   33 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQVTLNQQ   33 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            47889999999999999999998643

>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=97.66  E-value=1.4e-05  Score=69.43  Aligned_cols=30  Identities=30%  Similarity=0.455  Sum_probs=26.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.|||||||||+|+.||..+|+..+..
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            467789999999999999999999877654

>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=97.61  E-value=1.4e-05  Score=69.98  Aligned_cols=30  Identities=20%  Similarity=0.423  Sum_probs=26.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -++|.||||+||||+++.||..+|+..+..
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            367889999999999999999999877654

>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=97.61  E-value=1.7e-05  Score=68.47  Aligned_cols=29  Identities=24%  Similarity=0.355  Sum_probs=26.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.|||||||||+|+.||..+|+..+..
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            78899999999999999999999887764

>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=97.60  E-value=1.7e-05  Score=69.33  Aligned_cols=31  Identities=23%  Similarity=0.427  Sum_probs=27.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      ++-++|.|||||||||+|+.||..+|+..+.
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            4568999999999999999999999876654

>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=97.59  E-value=2.1e-05  Score=68.68  Aligned_cols=31  Identities=19%  Similarity=0.351  Sum_probs=27.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      .-++|.||||+||||+|+.||..+|+..+..
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            4578889999999999999999999877653

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.58  E-value=1.4e-05  Score=68.94  Aligned_cols=33  Identities=27%  Similarity=0.293  Sum_probs=28.2

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.|.-++|.|+|||||||+|+.++..+++.++.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i~   44 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN   44 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEEc
Confidence            456789999999999999999999988876554

>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=97.58  E-value=1.6e-05  Score=68.80  Aligned_cols=29  Identities=28%  Similarity=0.517  Sum_probs=25.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||+||||+++.||.++|+..+..
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            67889999999999999999999876654

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.53  E-value=2.2e-05  Score=66.92  Aligned_cols=25  Identities=28%  Similarity=0.603  Sum_probs=23.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ++|.||||||||||+++|++.++.+
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            7899999999999999999988764

>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=97.52  E-value=2.4e-05  Score=69.12  Aligned_cols=29  Identities=38%  Similarity=0.633  Sum_probs=26.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      -+.+.|||||||||+|+.||+.+|++++.
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            57788999999999999999999987764

>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=97.52  E-value=2.1e-05  Score=67.67  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=26.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      ++|.||||+||||+++.||..+|+..+..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~~~~i~~   31 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceech
Confidence            67899999999999999999999887753

>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=97.50  E-value=2.8e-05  Score=67.58  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=26.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .-++|.||||+||||.|+.||..+|+..+.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            357899999999999999999999876654

>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=97.45  E-value=5.1e-05  Score=66.85  Aligned_cols=33  Identities=27%  Similarity=0.373  Sum_probs=29.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      |+|.+++++|||||+||||+++.+|++.++-.+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            788899999999999999999999999987543

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.43  E-value=3.4e-05  Score=64.02  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +-++|+||||+||||+|+.|+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999987654

>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=97.41  E-value=3.9e-05  Score=67.95  Aligned_cols=28  Identities=29%  Similarity=0.483  Sum_probs=24.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      +.+.||||+||||+|+.||.++|++++.
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            4467999999999999999999988765

>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=97.38  E-value=4.7e-05  Score=66.48  Aligned_cols=27  Identities=22%  Similarity=0.450  Sum_probs=23.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      |--++|.|+||+||||+|++||.+++.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345789999999999999999988753

>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=97.26  E-value=0.00023  Score=65.59  Aligned_cols=32  Identities=28%  Similarity=0.467  Sum_probs=28.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +.+....++|+|||+||||+++.+|++.+|..
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~  131 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAHTVPFY  131 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHHHSSCE
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHHHhcch
Confidence            45778899999999999999999999999753

>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=97.24  E-value=0.00021  Score=63.87  Aligned_cols=38  Identities=18%  Similarity=0.182  Sum_probs=30.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      |+|.+.-++++||||+|||+++..+|...   +..++.++.
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~   62 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAY   62 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeec
Confidence            67888889999999999999999998765   445555544

>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=97.24  E-value=6.6e-05  Score=63.76  Aligned_cols=27  Identities=22%  Similarity=0.356  Sum_probs=23.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +-+++.|||||||||+++.||..|+..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            468899999999999999999987543

>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=97.07  E-value=0.00012  Score=61.32  Aligned_cols=31  Identities=19%  Similarity=0.184  Sum_probs=25.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      -+.+.||||||||||++.|++++   |+.+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            47899999999999999999875   55555443

>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=96.99  E-value=0.0002  Score=63.53  Aligned_cols=28  Identities=32%  Similarity=0.260  Sum_probs=25.1

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      |+|..+-++|+||||||||+++-.+|..
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            6888889999999999999999988754

>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=96.99  E-value=0.00016  Score=62.38  Aligned_cols=29  Identities=24%  Similarity=0.204  Sum_probs=25.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |++..+-++++||||+|||+++..+|...
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            67888889999999999999999998754

>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=96.91  E-value=0.00046  Score=61.58  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=25.6

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |+|..+-++++||||||||+++-.+|...
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            68888889999999999999999888654

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.88  E-value=0.0005  Score=60.78  Aligned_cols=36  Identities=25%  Similarity=0.328  Sum_probs=29.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc----CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL----NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l----~~~i~~l~~~~  262 (431)
                      +..++|+|+||+||||+|++|+..+    +.+++.++...
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~   63 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   63 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchH
Confidence            4568899999999999999999765    66777776543

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.88  E-value=0.00015  Score=61.64  Aligned_cols=26  Identities=35%  Similarity=0.510  Sum_probs=22.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      -+++.|+||+||||+++.||..|+..
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            46889999999999999999988654

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00028  Score=62.97  Aligned_cols=28  Identities=21%  Similarity=0.148  Sum_probs=25.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      |+|..+-++++||||||||+++..+|..
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            7888889999999999999999999864

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.76  E-value=0.00048  Score=59.48  Aligned_cols=28  Identities=32%  Similarity=0.492  Sum_probs=24.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      |.++|.||+|+|||+|++.|+.++...+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            5689999999999999999999876544

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.69  E-value=0.00054  Score=59.44  Aligned_cols=28  Identities=32%  Similarity=0.450  Sum_probs=24.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCe
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDV  255 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i  255 (431)
                      |.+.|.||+|+|||++++.++..++..+
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            4588999999999999999999887554

>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=96.68  E-value=0.0024  Score=56.42  Aligned_cols=36  Identities=25%  Similarity=0.242  Sum_probs=27.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      |.-++|.||+|+||||.+.-||..+   |..+..+.+..
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt   47 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT   47 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            4568899999999999999999654   45555554433

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.56  E-value=0.00088  Score=57.14  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=21.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -+-+.||+|+||||+|+.|+..++.
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3558999999999999999987653

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.00084  Score=61.54  Aligned_cols=44  Identities=16%  Similarity=0.225  Sum_probs=33.2

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccCcCCh
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTSVENN  266 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~~~~~  266 (431)
                      |+|..+-.+|+||||||||+++-.+|..   -|..++.+|...--+.
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~   96 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDP   96 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCH
Confidence            6777788899999999999999877654   3566777776554333

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.43  E-value=0.015  Score=54.04  Aligned_cols=37  Identities=19%  Similarity=0.104  Sum_probs=28.7

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC-----CCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN-----YDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~-----~~i~~l~~~~~  263 (431)
                      |--+-+.||+|+||||+|+.|+..|.     ..+..++..+.
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            34566899999999999999999874     45666666555

>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=96.38  E-value=0.00097  Score=58.90  Aligned_cols=37  Identities=27%  Similarity=0.249  Sum_probs=27.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTS  262 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~  262 (431)
                      .++-++|.||+|+||||.+.-||..+   |..+..+.+..
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt   44 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT   44 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecc
Confidence            35678999999999999999888765   44555444443

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.36  E-value=0.0024  Score=54.72  Aligned_cols=29  Identities=38%  Similarity=0.470  Sum_probs=24.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEe
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDL  258 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l  258 (431)
                      -+-++|++|+|||++|+.+ .++|++++..
T Consensus         5 IIgitG~~gSGKstva~~l-~~~g~~~~~~   33 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALL-RSWGYPVLDL   33 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH-HHTTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCeEEEc
Confidence            3558999999999999998 5689888764

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.30  E-value=0.0008  Score=59.01  Aligned_cols=39  Identities=21%  Similarity=0.212  Sum_probs=28.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHH----HcCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMAN----CLNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~----~l~~~i~~l~~~  261 (431)
                      |+|.+.-++|+||||+|||+++..+|.    .-+..++.++..
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            678888899999999999999976543    224555555443

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.27  E-value=0.0021  Score=59.01  Aligned_cols=50  Identities=16%  Similarity=0.196  Sum_probs=37.3

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHH---HcCCCeEEecccCcCChHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSVENNNELRSL  272 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~---~l~~~i~~l~~~~~~~~~~l~~l  272 (431)
                      |+|..+-..|+||||||||++|..+|.   ..|..++.+|...--+.+.+.++
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~  108 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKL  108 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHh
Confidence            788888999999999999999865554   45677777777664455544444

>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=96.25  E-value=0.0035  Score=52.73  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=24.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .-++|+|+=|+|||+++|++++.+|..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhcccc
Confidence            347899999999999999999999863

>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=96.24  E-value=0.0022  Score=56.72  Aligned_cols=35  Identities=23%  Similarity=0.222  Sum_probs=25.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |.-++|.||+|+||||.+.-||..+   +..+..+.+.
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~D   48 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD   48 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeec
Confidence            4568899999999999999888654   4454444433

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.22  E-value=0.00089  Score=59.00  Aligned_cols=29  Identities=21%  Similarity=0.205  Sum_probs=25.7

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHHc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      |++...-++|.||||+|||+++..+|..+
T Consensus        30 Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          30 GLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            57777889999999999999999998755

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.19  E-value=0.0017  Score=55.46  Aligned_cols=25  Identities=32%  Similarity=0.538  Sum_probs=22.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-++|.||+|+|||++++.|+..+.
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            5678999999999999999998874

>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=96.03  E-value=0.0017  Score=54.47  Aligned_cols=31  Identities=16%  Similarity=0.297  Sum_probs=24.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      -+-+.|+||+|||||+..++.+|   |+.+..+.
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            45689999999999999999876   45665553

>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=95.97  E-value=0.0021  Score=56.70  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=27.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      ++-++|.||+|+||||.+.-||..+   |..+..+++...
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~   49 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQ   49 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccc
Confidence            3457889999999999999998765   556555554433

>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=95.95  E-value=0.0016  Score=57.69  Aligned_cols=34  Identities=26%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      |.-++|.||+|+||||.+.-||..+   |..+..+.+
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~   48 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGA   48 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEe
Confidence            4568899999999999998888755   344444433

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.86  E-value=0.031  Score=51.32  Aligned_cols=36  Identities=22%  Similarity=0.241  Sum_probs=26.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc------CCCeEEecccCcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL------NYDVYDLELTSVE  264 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l------~~~i~~l~~~~~~  264 (431)
                      -+-|.|||||||||++..|...+      +..+..+++.+..
T Consensus        29 iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          29 FIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            34478999999999999887664      4456666766653

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.84  E-value=0.0035  Score=57.44  Aligned_cols=45  Identities=18%  Similarity=0.182  Sum_probs=34.5

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccCcCChH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTSVENNN  267 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~~~~~~  267 (431)
                      |+|..+-..++||||||||++|..+|..   .|..++.+|...--+.+
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~  100 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPV  100 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHH
Confidence            6777888899999999999999877654   46677777766543443

>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=95.82  E-value=0.0024  Score=52.29  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=19.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ++|.|+||+|||||+..+.+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999864

>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=95.80  E-value=0.003  Score=54.17  Aligned_cols=32  Identities=22%  Similarity=0.291  Sum_probs=26.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      .+|+||.||+|+|||++|.++... |..++.=|
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv~DD   45 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLIADD   45 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEecC
Confidence            579999999999999999998875 77665433

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.78  E-value=0.0026  Score=55.47  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=22.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      -+-+.||+|+||||+++.|+..++..
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhchh
Confidence            35589999999999999999998754

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.74  E-value=0.0031  Score=55.43  Aligned_cols=32  Identities=34%  Similarity=0.331  Sum_probs=25.3

Q ss_pred             ceeE--EeCCCCCcHHHHHHHHHHHc---CCCeEEec
Q 035603          228 RGYL--LFGPPGTGKSTMIAAMANCL---NYDVYDLE  259 (431)
Q Consensus       228 rg~L--L~GPPGtGKTsla~aiA~~l---~~~i~~l~  259 (431)
                      ||.|  |.||.|+||||+++.|++.|   |++++.+.
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4554  55999999999999999876   66776654

>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=95.53  E-value=0.0054  Score=58.50  Aligned_cols=21  Identities=43%  Similarity=0.662  Sum_probs=17.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMA  248 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA  248 (431)
                      +-.++.||||||||+++..+.
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHH
Confidence            467899999999999875543

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.46  E-value=0.0091  Score=49.73  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .-++|.|.||+|||||+.++.+.
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999864

>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=95.46  E-value=0.0051  Score=52.52  Aligned_cols=27  Identities=15%  Similarity=0.348  Sum_probs=23.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++.++|.||+|+|||+|++.|.....-
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            467999999999999999999987543

>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=95.44  E-value=0.0038  Score=50.89  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=19.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ++|.|+||+|||||+..+.+.
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999874

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.42  E-value=0.0041  Score=54.36  Aligned_cols=29  Identities=41%  Similarity=0.495  Sum_probs=24.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~  259 (431)
                      +-|+|++|+|||++++.+. ++|+++++.|
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vidaD   34 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVIDAD   34 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEEHH
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEEch
Confidence            4589999999999999886 7899888754

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.39  E-value=0.0043  Score=53.99  Aligned_cols=30  Identities=27%  Similarity=0.347  Sum_probs=25.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      +-++|++||||||+++.+. ++|+++++.|.
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vidaD~   34 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDADV   34 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEHHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEchH
Confidence            3479999999999999886 68999988763

>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=95.30  E-value=0.011  Score=57.18  Aligned_cols=54  Identities=26%  Similarity=0.457  Sum_probs=39.9

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCce-eEEeCCCCCcHHHHHHHHHHHcC---CCeEEe
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRG-YLLFGPPGTGKSTMIAAMANCLN---YDVYDL  258 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPPGtGKTsla~aiA~~l~---~~i~~l  258 (431)
                      .++++++..+...+.+.+.    +.           .++| +|+.||+|+||||+..++-.+++   .+++.+
T Consensus       135 ~~l~~LG~~~~~~~~l~~l----~~-----------~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~ti  192 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRL----IK-----------RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTV  192 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHH----HT-----------SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEE
T ss_pred             hhhhhhcccHHHHHHHHHH----Hh-----------hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEe
Confidence            5789999998877665432    22           2345 57889999999999999998874   345555

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.25  E-value=0.0044  Score=53.08  Aligned_cols=33  Identities=30%  Similarity=0.266  Sum_probs=26.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+|+||.||+|+|||++|.++... |..++.=|.
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lvaDD~   47 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFVGDDA   47 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEEEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCceecCCe
Confidence            579999999999999999988754 766654443

>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=95.24  E-value=0.0049  Score=53.32  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=20.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      |.++|.||||+|||+|..++.+
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999999987

>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=95.24  E-value=0.0047  Score=50.67  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|+||+|||||++++.+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.23  E-value=0.0056  Score=52.06  Aligned_cols=30  Identities=23%  Similarity=0.307  Sum_probs=24.8

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      .+|+||.||+|+|||+++-++... |..++.
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            579999999999999999888776 665543

>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=95.21  E-value=0.0048  Score=54.30  Aligned_cols=30  Identities=30%  Similarity=0.595  Sum_probs=23.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc--CCCeEEec
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL--NYDVYDLE  259 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l--~~~i~~l~  259 (431)
                      +++.||||+|||||+.++...+  +.....++
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            6789999999999999998765  33444443

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.11  E-value=0.0042  Score=56.08  Aligned_cols=25  Identities=28%  Similarity=0.252  Sum_probs=21.2

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +..-.+|+||||+|||+|+..+|..
T Consensus        28 pg~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          28 AGTVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3556789999999999999988865

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=95.07  E-value=0.004  Score=58.58  Aligned_cols=27  Identities=22%  Similarity=0.469  Sum_probs=24.3

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++.+|+.||+|+|||++.+|++.+...
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            468999999999999999999998754

>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=94.89  E-value=0.012  Score=53.21  Aligned_cols=39  Identities=23%  Similarity=0.144  Sum_probs=29.9

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHHHH----cCCCeEEeccc
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMANC----LNYDVYDLELT  261 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA~~----l~~~i~~l~~~  261 (431)
                      |+.+..-++|.|+||+|||+++..+|..    .|.++..+++.
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            5666667899999999999998888743    36777776654

>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=94.88  E-value=0.011  Score=51.65  Aligned_cols=25  Identities=32%  Similarity=0.569  Sum_probs=22.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +-++|.||+|+|||+|++.+.....
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            3478999999999999999998865

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.86  E-value=0.007  Score=50.80  Aligned_cols=21  Identities=29%  Similarity=0.703  Sum_probs=18.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +++.|+||+|||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998763

>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=94.77  E-value=0.0071  Score=55.07  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=16.3

Q ss_pred             ceeEEeCCCCCcHHHHH-HHHHH
Q 035603          228 RGYLLFGPPGTGKSTMI-AAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla-~aiA~  249 (431)
                      ..+|+.||||||||+++ ..++.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~   37 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAH   37 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHH
Confidence            35889999999999864 34443

>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=94.76  E-value=0.0068  Score=50.20  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=19.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||||++.+.+
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            378999999999999999876

>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=94.73  E-value=0.0094  Score=51.09  Aligned_cols=23  Identities=17%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -.++|.|+||+|||||..++.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999999875

>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=94.67  E-value=0.0055  Score=51.10  Aligned_cols=21  Identities=19%  Similarity=0.506  Sum_probs=18.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|+||+|||||..++.+
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999864

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.58  E-value=0.013  Score=50.29  Aligned_cols=32  Identities=22%  Similarity=0.408  Sum_probs=26.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |.+.|+.|+||||+++.|+..|   |+++..+...
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~P   37 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFP   37 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            5678999999999999999876   6777766543

>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=94.55  E-value=0.0073  Score=50.45  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .+.|.|+||+|||||+++|.+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999753

>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=94.49  E-value=0.0055  Score=53.48  Aligned_cols=26  Identities=27%  Similarity=0.526  Sum_probs=22.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      ..-+.|.||.|+|||||.++|++.+.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccc
Confidence            44577999999999999999998764

>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=94.49  E-value=0.0058  Score=51.43  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .++|.|+||+|||||+.+|.++
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999763

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.45  E-value=0.0089  Score=54.98  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=17.2

Q ss_pred             ceeEEeCCCCCcHHHHH-HHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMI-AAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla-~aiA~~  250 (431)
                      ..+|+.||||||||+++ ..+|..
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~l   48 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYL   48 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHH
Confidence            35899999999999754 445544

>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=94.43  E-value=0.01  Score=49.19  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|+||+|||+|+..+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3788999999999999999763

>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=94.39  E-value=0.011  Score=49.22  Aligned_cols=21  Identities=29%  Similarity=0.650  Sum_probs=19.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ++|.|+||+|||+|++.+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999999863

>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=94.35  E-value=0.011  Score=49.02  Aligned_cols=20  Identities=30%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998886

>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=94.30  E-value=0.0099  Score=49.66  Aligned_cols=20  Identities=25%  Similarity=0.619  Sum_probs=18.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|++.+.+
T Consensus         8 i~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999986

>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=94.29  E-value=0.011  Score=49.00  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|+||+|||+|+..+.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999863

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.27  E-value=0.0097  Score=51.61  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      =|.+.|++|+||||+++.|+..|
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36678999999999999999876

>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=94.23  E-value=0.012  Score=49.09  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +++.|+||+|||+|+..+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999999863

>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=94.19  E-value=0.0082  Score=51.23  Aligned_cols=29  Identities=24%  Similarity=0.234  Sum_probs=24.7

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      -|.+.|+.|+||||+++.|+++++...+.
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            46788999999999999999999765443

>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=94.11  E-value=0.013  Score=48.85  Aligned_cols=20  Identities=30%  Similarity=0.669  Sum_probs=18.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|++.+.+
T Consensus         5 i~lvG~~~vGKTsli~r~~~   24 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLT   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999999886

>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=94.07  E-value=0.012  Score=52.42  Aligned_cols=28  Identities=29%  Similarity=0.393  Sum_probs=23.4

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..--+-|.||.|||||||.+.|++.+..
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~~p   52 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLETI   52 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCCC
Confidence            3445779999999999999999987654

>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=94.06  E-value=0.014  Score=49.02  Aligned_cols=20  Identities=30%  Similarity=0.662  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|+||+|||||+..+.+
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>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=93.95  E-value=0.011  Score=52.58  Aligned_cols=27  Identities=30%  Similarity=0.395  Sum_probs=23.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      .--+-|.||.|||||||.++|++-...
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~~p   57 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLDKP   57 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCcchhhHhccCCCCC
Confidence            445789999999999999999997654

>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=93.94  E-value=0.014  Score=52.38  Aligned_cols=28  Identities=29%  Similarity=0.369  Sum_probs=23.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ...-+-|.||.|||||||.++|++.+..
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~p   58 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEEP   58 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCC
Confidence            3445779999999999999999997754

>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=93.90  E-value=0.013  Score=52.53  Aligned_cols=24  Identities=33%  Similarity=0.663  Sum_probs=20.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +-|.||.|||||||.++|++.+..
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~p   50 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEECCCCChHHHHHHHHHcCCCC
Confidence            347899999999999999997754

>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=93.89  E-value=0.015  Score=48.39  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.4

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|+||+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999863

>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=93.89  E-value=0.012  Score=54.02  Aligned_cols=29  Identities=17%  Similarity=0.287  Sum_probs=24.1

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +...-+-|.||.|+|||||+++|++.+..
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCcC
Confidence            34455789999999999999999997754

>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=93.89  E-value=0.012  Score=51.92  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=23.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeE
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVY  256 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~  256 (431)
                      +-|+|+.||||||+|+.++..+|+.++
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            568999999999999999998886544

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.88  E-value=0.014  Score=49.29  Aligned_cols=20  Identities=30%  Similarity=0.596  Sum_probs=18.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999999875

>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=93.87  E-value=0.015  Score=48.44  Aligned_cols=20  Identities=25%  Similarity=0.664  Sum_probs=18.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||||+..+.+
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999875

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.86  E-value=0.02  Score=50.27  Aligned_cols=31  Identities=19%  Similarity=0.138  Sum_probs=26.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCCeEE
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYDVYD  257 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~i~~  257 (431)
                      |+=|.+.|+-|+||||+++.|+..++...+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i~   32 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHVA   32 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCCc
Confidence            4568899999999999999999999765443

>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=93.84  E-value=0.014  Score=48.44  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=19.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ++|.|+||+|||||+..+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999999873

>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=93.82  E-value=0.014  Score=48.69  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=19.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|.||+|||+|++.+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            389999999999999999876

>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=93.75  E-value=0.013  Score=48.89  Aligned_cols=21  Identities=33%  Similarity=0.600  Sum_probs=19.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||+|+..+.+
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            589999999999999999854

>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=93.75  E-value=0.012  Score=48.19  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=19.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|.|+||+|||||+.++.+.
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999753

>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=93.73  E-value=0.017  Score=47.94  Aligned_cols=20  Identities=20%  Similarity=0.456  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|.||+|||+|+..+.+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.68  E-value=0.017  Score=48.72  Aligned_cols=20  Identities=25%  Similarity=0.679  Sum_probs=18.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|.||||||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=93.65  E-value=0.012  Score=50.09  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+.|.|+||+|||||+.+|.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            388999999999999999975

>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=93.64  E-value=0.016  Score=48.01  Aligned_cols=21  Identities=33%  Similarity=0.591  Sum_probs=18.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +++.|+||+|||||+.++.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998763

>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=93.63  E-value=0.018  Score=48.33  Aligned_cols=20  Identities=30%  Similarity=0.698  Sum_probs=18.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|+||+|||+|+..+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999999986

>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=93.63  E-value=0.013  Score=53.00  Aligned_cols=30  Identities=23%  Similarity=0.349  Sum_probs=24.8

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++...-+-|.||+|||||||++.|++.+..
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~~p   67 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFYDI   67 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTTCC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcccCC
Confidence            344556889999999999999999987654

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.61  E-value=0.018  Score=47.43  Aligned_cols=20  Identities=15%  Similarity=0.395  Sum_probs=18.8

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|++|+|||+|+..+.+
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999986

>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=93.57  E-value=0.016  Score=51.90  Aligned_cols=26  Identities=31%  Similarity=0.488  Sum_probs=22.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      --+-|.||.|||||||+++|++.+..
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~~p   55 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLEEP   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSSCC
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCCC
Confidence            35679999999999999999987643

>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=93.56  E-value=0.019  Score=47.77  Aligned_cols=20  Identities=25%  Similarity=0.634  Sum_probs=18.7

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|+||+|||+|++.+.+
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>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=93.53  E-value=0.016  Score=48.20  Aligned_cols=20  Identities=30%  Similarity=0.642  Sum_probs=18.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|.||+|||+|+..+.+
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

>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=93.43  E-value=0.015  Score=52.23  Aligned_cols=28  Identities=25%  Similarity=0.355  Sum_probs=23.7

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      +...-+-+.||.|+|||||++.|++.+.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4445678999999999999999998764

>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=93.41  E-value=0.02  Score=45.76  Aligned_cols=35  Identities=31%  Similarity=0.394  Sum_probs=28.1

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCCeEEecccC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYDVYDLELTS  262 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~~  262 (431)
                      +..+|.+|+|+|||.++-.++...+..++.+-...
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~~   43 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSV   43 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESCH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcChH
Confidence            56799999999999998877778888777665543

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.021  Score=47.70  Aligned_cols=20  Identities=30%  Similarity=0.615  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998876

>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=93.36  E-value=0.015  Score=52.14  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ..-+-|.||.|||||||+++|++....
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~p   57 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLERP   57 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCccc
Confidence            345779999999999999999997654

>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=93.35  E-value=0.018  Score=48.08  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=19.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|.||+|||+|++.+.+
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998876

>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=93.33  E-value=0.014  Score=52.34  Aligned_cols=29  Identities=21%  Similarity=0.185  Sum_probs=24.5

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +...-+-+.||.|+|||||+++|++.+..
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~~p   55 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFYIP   55 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            33456889999999999999999997754

>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=93.31  E-value=0.015  Score=51.69  Aligned_cols=28  Identities=25%  Similarity=0.521  Sum_probs=23.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      .--+-|.||.|||||||.++|++.+..+
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~p~   53 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHVPD   53 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCcCCC
Confidence            3457899999999999999999976543

>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=93.30  E-value=0.019  Score=47.48  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=19.5

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      +-++|.|++|+|||+|+..+.+
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3478999999999999999876

>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=93.27  E-value=0.013  Score=49.08  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=19.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||||++.+.+
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999874

>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=93.25  E-value=0.016  Score=52.30  Aligned_cols=29  Identities=34%  Similarity=0.367  Sum_probs=24.5

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +...-+-+.||.|+|||||++.|++.+..
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~~p   66 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLYQP   66 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcccCC
Confidence            44456889999999999999999987754

>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=93.23  E-value=0.018  Score=53.92  Aligned_cols=34  Identities=35%  Similarity=0.469  Sum_probs=25.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc---CC--CeEEecccCc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL---NY--DVYDLELTSV  263 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l---~~--~i~~l~~~~~  263 (431)
                      +=+.||||+|||||+.+++..+   |.  -++.+|.++-
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            5689999999999999999753   33  4566666553

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.19  E-value=0.018  Score=51.16  Aligned_cols=26  Identities=27%  Similarity=0.519  Sum_probs=19.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+..+|.|++|+|||||+.+|.....
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             cceEEEECCCCccHHHHHHhhccHhH
Confidence            34567889999999999999976554

>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=93.14  E-value=0.021  Score=47.59  Aligned_cols=20  Identities=35%  Similarity=0.747  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|.||+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.14  E-value=0.021  Score=47.00  Aligned_cols=20  Identities=20%  Similarity=0.521  Sum_probs=18.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|.+|+|||+|++.+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999985

>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=93.12  E-value=0.025  Score=47.62  Aligned_cols=26  Identities=12%  Similarity=0.226  Sum_probs=21.2

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      |..--+++.|.||+|||+|+..+...
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhC
Confidence            33345899999999999999998763

>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=93.10  E-value=0.021  Score=47.86  Aligned_cols=23  Identities=13%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +-+++.|++|+|||+|+..+.+.
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999998864

>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=93.09  E-value=0.038  Score=48.17  Aligned_cols=33  Identities=24%  Similarity=0.175  Sum_probs=27.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCCCeEEeccc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNYDVYDLELT  261 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~~  261 (431)
                      =|-+.|+-|+||||+++.|+..|......+...
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~p   37 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQPNCKLLKFP   37 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTTSEEEEESS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhCCEEEEEC
Confidence            356789999999999999999998776665543

>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=93.09  E-value=0.039  Score=49.73  Aligned_cols=35  Identities=23%  Similarity=0.200  Sum_probs=28.6

Q ss_pred             CCceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          226 WKRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       226 ~~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      .||-+++.|.-|+||||++.++|..+   |..+..+|+
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~   44 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVST   44 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeC
Confidence            47888999999999999999998765   777765553

>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=93.08  E-value=0.025  Score=47.05  Aligned_cols=21  Identities=24%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|.||+|||+|+..+.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999875

>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=93.07  E-value=0.021  Score=47.52  Aligned_cols=20  Identities=40%  Similarity=0.762  Sum_probs=18.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|+||+|||+|++.+.+
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            68899999999999998865

>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=93.06  E-value=0.025  Score=46.79  Aligned_cols=21  Identities=24%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      ++|.|.+|+|||+|++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998763

>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=93.04  E-value=0.021  Score=47.84  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.|.|.||+|||||+.++.+.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>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=92.95  E-value=0.026  Score=46.65  Aligned_cols=20  Identities=30%  Similarity=0.549  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|.||+|||+|++.+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>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=92.87  E-value=0.022  Score=53.35  Aligned_cols=36  Identities=31%  Similarity=0.399  Sum_probs=25.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---C--CCeEEecccCcC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---N--YDVYDLELTSVE  264 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~--~~i~~l~~~~~~  264 (431)
                      -+=+.||||+|||||+.+++..+   |  .-++.+|+++-.
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~   96 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPV   96 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceee
Confidence            36689999999999999998764   3  345666766543

>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=92.87  E-value=0.014  Score=52.31  Aligned_cols=26  Identities=27%  Similarity=0.510  Sum_probs=22.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .--+-|.||.|||||||+++|++...
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~~   56 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLDV   56 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcC
Confidence            34578999999999999999999654

>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=92.83  E-value=0.013  Score=51.33  Aligned_cols=26  Identities=19%  Similarity=0.235  Sum_probs=22.9

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +=|.+.||-|+||||+++.||..|..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            34778999999999999999998854

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.77  E-value=0.029  Score=46.46  Aligned_cols=20  Identities=25%  Similarity=0.577  Sum_probs=18.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|+||+|||+|+..+.+
T Consensus         6 i~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999998875

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.71  E-value=0.0095  Score=48.84  Aligned_cols=21  Identities=33%  Similarity=0.637  Sum_probs=19.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +.|.|+||+|||||+.+|.++
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            689999999999999999875

>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=92.71  E-value=0.028  Score=47.11  Aligned_cols=26  Identities=27%  Similarity=0.497  Sum_probs=20.8

Q ss_pred             CCCCCceeEEeCCCCCcHHHHHHHHH
Q 035603          223 GKAWKRGYLLFGPPGTGKSTMIAAMA  248 (431)
Q Consensus       223 g~~~~rg~LL~GPPGtGKTsla~aiA  248 (431)
                      |....--++|.|+||+|||||++.+.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            33334568999999999999999874

>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=92.62  E-value=0.031  Score=46.45  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=18.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|++|+|||+|+..+.+
T Consensus         7 i~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68889999999999999986

>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=92.60  E-value=0.018  Score=48.18  Aligned_cols=20  Identities=30%  Similarity=0.630  Sum_probs=8.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|.||+|||+|++++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999998875

>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=92.58  E-value=0.03  Score=46.73  Aligned_cols=20  Identities=40%  Similarity=0.634  Sum_probs=18.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|++|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=92.52  E-value=0.011  Score=49.51  Aligned_cols=23  Identities=43%  Similarity=0.499  Sum_probs=20.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .+|+||.|+|||++..||.-.|+
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            46889999999999999998764

>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=92.49  E-value=0.024  Score=51.30  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=22.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      .--+-|.||.|+|||||+++|++.+.
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcc
Confidence            34577999999999999999998654

>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=92.44  E-value=0.034  Score=53.32  Aligned_cols=35  Identities=26%  Similarity=0.347  Sum_probs=26.1

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEeccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELT  261 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~  261 (431)
                      .+++++.|+||+|||++++.+...   .|..++.+|..
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            368999999999999988766532   35666666654

>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=92.42  E-value=0.028  Score=46.67  Aligned_cols=20  Identities=30%  Similarity=0.602  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +.|.|.||+|||||+.+|.+
T Consensus         8 I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999975

>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=92.34  E-value=0.031  Score=47.61  Aligned_cols=20  Identities=35%  Similarity=0.698  Sum_probs=18.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +++.|+||+|||+|+..+.+
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            78899999999999999876

>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=92.32  E-value=0.016  Score=48.46  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=17.9

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+++.|+||+|||+|+..+.+
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378899999999999998765

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=92.21  E-value=0.018  Score=52.14  Aligned_cols=30  Identities=23%  Similarity=0.287  Sum_probs=24.9

Q ss_pred             CCCCceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          224 KAWKRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       224 ~~~~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      ++...-+.+.||.|+|||||++.|++.+..
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p   70 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFYDV   70 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSCC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcCCc
Confidence            344557899999999999999999987654

>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=92.21  E-value=0.025  Score=50.59  Aligned_cols=28  Identities=29%  Similarity=0.427  Sum_probs=23.5

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      ..-+-|.||.|+|||||.++|++.+..+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~p~   59 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            3457799999999999999999987543

>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=92.20  E-value=0.031  Score=49.41  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=22.6

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      +...|.|++|+|||||+.+|.......
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            467899999999999999998765543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=92.04  E-value=0.065  Score=48.01  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.2

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +--++|.|.||+||||++.+|.+.
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCC
Confidence            456899999999999999999864

>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=92.03  E-value=0.032  Score=49.81  Aligned_cols=27  Identities=26%  Similarity=0.479  Sum_probs=22.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      +.-+-|.||.|+|||||.++|++.+..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~p   54 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIKP   54 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            345669999999999999999998754

>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=92.02  E-value=0.036  Score=46.62  Aligned_cols=21  Identities=19%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|.|.+|+|||+|+..+.+
T Consensus         4 KivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998876

>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=91.95  E-value=0.036  Score=46.74  Aligned_cols=20  Identities=25%  Similarity=0.514  Sum_probs=18.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|.+|+|||+|+..+.+
T Consensus        12 i~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            78999999999999999876

>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=91.93  E-value=0.035  Score=46.47  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=19.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+.+.|+||+|||||+.+|.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3678899999999999999863

>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=91.88  E-value=0.03  Score=46.99  Aligned_cols=20  Identities=35%  Similarity=0.572  Sum_probs=17.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +-|.|+||+|||||+.+|.+
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            66899999999999999864

>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=91.77  E-value=0.069  Score=46.03  Aligned_cols=31  Identities=23%  Similarity=0.192  Sum_probs=25.5

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCCeEEecc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYDVYDLEL  260 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~i~~l~~  260 (431)
                      .+|.+|+|+|||.++-+++.+++.+++.+-.
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            4577899999999999999999887665543

>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=91.74  E-value=0.04  Score=46.69  Aligned_cols=20  Identities=15%  Similarity=0.428  Sum_probs=18.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      ++|.|++|+|||+|+..+..
T Consensus         6 vvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78899999999999998875

>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=91.56  E-value=0.028  Score=46.63  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .-+.|.|+|++|||||..+|.+
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999854

>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=91.23  E-value=0.036  Score=46.35  Aligned_cols=20  Identities=45%  Similarity=0.664  Sum_probs=18.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +.|.|+||+|||||+.+|.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67899999999999999964

>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=91.22  E-value=0.47  Score=42.51  Aligned_cols=57  Identities=18%  Similarity=0.138  Sum_probs=37.4

Q ss_pred             cChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHHHHHHH---HcCCCeEEecccCc
Q 035603          197 MASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMIAAMAN---CLNYDVYDLELTSV  263 (431)
Q Consensus       197 g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla~aiA~---~l~~~i~~l~~~~~  263 (431)
                      +.+++++.+.+...++.          .+.+..-||+|..|||||-++-..+.   ..|..+..+-.+.+
T Consensus        84 LT~~Q~~ai~ei~~d~~----------~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~  143 (264)
T d1gm5a3          84 LTNAQKRAHQEIRNDMI----------SEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSI  143 (264)
T ss_dssp             CCHHHHHHHHHHHHHHH----------SSSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHH
T ss_pred             CCchHHHHHHHHHHHhh----------ccCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHh
Confidence            45666666655433333          23456789999999999998765543   45777776665554

>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=91.00  E-value=0.04  Score=49.61  Aligned_cols=27  Identities=41%  Similarity=0.677  Sum_probs=23.2

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      --+-|.||.|+|||||+++|++.+..+
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~~p~   57 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFLKAD   57 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCcCC
Confidence            347799999999999999999987653

>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=90.76  E-value=0.038  Score=43.45  Aligned_cols=18  Identities=28%  Similarity=0.268  Sum_probs=15.2

Q ss_pred             CceeEEeCCCCCcHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMI  244 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla  244 (431)
                      .+.++|++|||+|||..+
T Consensus         7 ~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             TCEEEECCCTTSSTTTTH
T ss_pred             CCcEEEEcCCCCChhHHH
Confidence            467899999999999655

>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=90.43  E-value=0.38  Score=42.32  Aligned_cols=39  Identities=23%  Similarity=0.156  Sum_probs=27.9

Q ss_pred             CCCceeEEeCCCCCcHHHHHHHHHHH---cCCCeEEecccCc
Q 035603          225 AWKRGYLLFGPPGTGKSTMIAAMANC---LNYDVYDLELTSV  263 (431)
Q Consensus       225 ~~~rg~LL~GPPGtGKTsla~aiA~~---l~~~i~~l~~~~~  263 (431)
                      +.+...||+|.+|+|||.++-..+..   .|..++.+-+...
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~  115 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTL  115 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHH
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            44668899999999999987655433   3666666655543

>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=90.40  E-value=0.055  Score=49.57  Aligned_cols=35  Identities=17%  Similarity=0.221  Sum_probs=24.0

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecccCc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELTSV  263 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~~~  263 (431)
                      -+-+.|++|+||||+++++++.+   +.+...++..+.
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            46789999999999999998866   456555655544

>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=90.40  E-value=0.049  Score=48.26  Aligned_cols=24  Identities=46%  Similarity=0.634  Sum_probs=20.6

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      .--+-|.||.|+|||||.++|++.
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            345678999999999999999984

>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=90.20  E-value=0.051  Score=49.25  Aligned_cols=23  Identities=35%  Similarity=0.627  Sum_probs=20.4

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLN  252 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~  252 (431)
                      -+|+||.|+|||++..||+-.++
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            48999999999999999987665

>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=90.03  E-value=0.056  Score=47.26  Aligned_cols=54  Identities=15%  Similarity=0.082  Sum_probs=34.9

Q ss_pred             CC-CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC---CceeEEeCCCCCcHHHHH
Q 035603          188 HP-ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW---KRGYLLFGPPGTGKSTMI  244 (431)
Q Consensus       188 ~p-~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPPGtGKTsla  244 (431)
                      +| .+|+++.+++.+.+.|.+.   -+..+.......+|.   ++.++...|+|||||...
T Consensus         9 e~i~sF~~l~L~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1           9 EIVDSFDDMNLSESLLRGIYAY---GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCCCCGGGSCCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             CccCCHHHCCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            44 5899999999988887542   122222222222222   478999999999999744

>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=89.99  E-value=0.074  Score=44.74  Aligned_cols=19  Identities=42%  Similarity=0.655  Sum_probs=17.6

Q ss_pred             eEEeCCCCCcHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMA  248 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA  248 (431)
                      ++|-|.+|+|||+|+..+.
T Consensus         5 ivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999999983

>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=89.65  E-value=0.085  Score=48.24  Aligned_cols=23  Identities=26%  Similarity=0.600  Sum_probs=20.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      -.++.||+|||||+|+..||+..
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHH
Confidence            48999999999999999998754

>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=89.58  E-value=0.095  Score=43.85  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.6

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+|+..+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>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=89.56  E-value=0.13  Score=43.61  Aligned_cols=33  Identities=18%  Similarity=0.356  Sum_probs=26.5

Q ss_pred             ceeEEeCC-CCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          228 RGYLLFGP-PGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       228 rg~LL~GP-PGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      +-|++.|- +|+|||+++-.||..|   |+.+..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            45889999 6999999999888754   778777764

>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=89.26  E-value=0.095  Score=49.29  Aligned_cols=24  Identities=38%  Similarity=0.645  Sum_probs=21.0

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -+++||.|+|||++..||+-.||.
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            379999999999999999876654

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.06  E-value=0.069  Score=45.99  Aligned_cols=50  Identities=20%  Similarity=0.147  Sum_probs=30.6

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHHH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKSTM  243 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTsl  243 (431)
                      ||+++...+++.+.|.+.  . +..+.......+|   .++.++..+|+|+|||..
T Consensus         2 sF~~l~L~~~l~~~L~~~--g-~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEA--G-FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHT--T-CCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            688988888888877652  1 1111111111111   146799999999999953

>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=88.90  E-value=0.079  Score=46.38  Aligned_cols=28  Identities=32%  Similarity=0.434  Sum_probs=22.2

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHc-CCCeE
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCL-NYDVY  256 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l-~~~i~  256 (431)
                      -+++.|..|+|||||++.+.... +..+.
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~~~~ria   33 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQHGYKIA   33 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSCCCCCEE
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcCCCCcEE
Confidence            47899999999999999988754 34443

>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=88.66  E-value=0.18  Score=44.83  Aligned_cols=35  Identities=37%  Similarity=0.424  Sum_probs=26.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      ++-+++.|.-|+||||++-.+|..+   |..+..+|+.
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            4567888999999999877777544   6777666544

>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=88.45  E-value=0.062  Score=46.49  Aligned_cols=51  Identities=16%  Similarity=0.090  Sum_probs=31.9

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHHH
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKSTM  243 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTsl  243 (431)
                      ++|+++.+++++.+.|.+.  . +..+.......+|   -++.+++..|+|||||..
T Consensus         1 s~F~dl~L~~~l~~~l~~~--g-~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_           1 SGFRDFLLKPELLRAIVDC--G-FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CCSTTSCCCHHHHHHHHHT--T-CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHH
T ss_pred             CCccccCcCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCeEEEeccccccccc
Confidence            3688998888888777541  1 1122222222211   147899999999999853

>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=88.21  E-value=0.1  Score=48.75  Aligned_cols=25  Identities=36%  Similarity=0.244  Sum_probs=22.1

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          229 GYLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      -|.|-|+-|+||||+++.++++++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            3668899999999999999999864

>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=88.17  E-value=0.12  Score=44.97  Aligned_cols=21  Identities=38%  Similarity=0.562  Sum_probs=18.8

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -+||-|++|+|||+|++.+..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999998854

>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=88.06  E-value=0.15  Score=44.97  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.9

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      .+.++|+||..+|||++.|++|-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            47899999999999999999985

>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=87.47  E-value=0.16  Score=43.18  Aligned_cols=19  Identities=26%  Similarity=0.440  Sum_probs=16.0

Q ss_pred             CceeEEeCCCCCcHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIA  245 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~  245 (431)
                      .+.+++.+|+|+|||..+.
T Consensus        40 ~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CSCEEEECSSHHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHHH
Confidence            3568999999999998763

>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=87.36  E-value=0.14  Score=42.65  Aligned_cols=22  Identities=41%  Similarity=0.516  Sum_probs=19.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -++|-|.+|+|||+|+..+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999764

>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=87.16  E-value=0.099  Score=45.35  Aligned_cols=52  Identities=15%  Similarity=0.105  Sum_probs=33.1

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHHHH
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKSTMI  244 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTsla  244 (431)
                      .+|+++...+++.+.|.+.  . +..+.......+|   .++-+++..|+|||||...
T Consensus        10 ~sF~~l~l~~~l~~~L~~~--g-~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~   64 (212)
T d1qdea_          10 YKFDDMELDENLLRGVFGY--G-FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   64 (212)
T ss_dssp             CCGGGGTCCHHHHHHHHHH--T-CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHH
T ss_pred             cChhhCCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCEEeecccccchhhhh
Confidence            6799999888888877541  1 1122222222211   2467999999999999743

>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=86.30  E-value=0.21  Score=41.91  Aligned_cols=32  Identities=25%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHH----cCCCeEEec
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANC----LNYDVYDLE  259 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~----l~~~i~~l~  259 (431)
                      +..|+.+|.|+|||.++-.++..    -+..++.+-
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~   59 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLA   59 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEEC
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEc
Confidence            34789999999999876655542    344454443

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.89  E-value=0.084  Score=45.53  Aligned_cols=51  Identities=20%  Similarity=0.092  Sum_probs=31.7

Q ss_pred             CCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHH
Q 035603          189 PATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKST  242 (431)
Q Consensus       189 p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTs  242 (431)
                      +.+|+++...+++.+.|.+.  . +..+.......+|   .++.+++..|+|||||.
T Consensus         2 ~~~F~~l~L~~~l~~~l~~~--g-~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTl   55 (206)
T d1veca_           2 GNEFEDYCLKRELLMGIFEM--G-WEKPSPIQEESIPIALSGRDILARAKNGTGKSG   55 (206)
T ss_dssp             CSSGGGSCCCHHHHHHHHTT--T-CCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHH
T ss_pred             CCChhccCcCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCEEeeccCcccccc
Confidence            46788988888887776542  0 1111112222111   14789999999999995

>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=85.39  E-value=0.29  Score=43.26  Aligned_cols=34  Identities=24%  Similarity=0.360  Sum_probs=25.4

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEeccc
Q 035603          228 RGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLELT  261 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~~  261 (431)
                      |.|-++|.=|+||||++--+|..|   |..+..+|+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            356678999999999988877654   6777666553

>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=85.30  E-value=0.085  Score=45.18  Aligned_cols=49  Identities=20%  Similarity=0.121  Sum_probs=29.5

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCC---CceeEEeCCCCCcHHH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAW---KRGYLLFGPPGTGKST  242 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPPGtGKTs  242 (431)
                      +|+++.+.+.+.+.|.+.  .| ..+......-+|.   ++.+++..|+|||||.
T Consensus         2 ~F~~l~L~~~l~~~l~~~--g~-~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTl   53 (209)
T d1q0ua_           2 QFTRFPFQPFIIEAIKTL--RF-YKPTEIQERIIPGALRGESMVGQSQTGTGKTH   53 (209)
T ss_dssp             CGGGSCCCHHHHHHHHHT--TC-CSCCHHHHHHHHHHHHTCCEEEECCSSHHHHH
T ss_pred             ccccCCcCHHHHHHHHHC--CC-CCCCHHHHHHHHHHHCCCCeEeecccccccce
Confidence            578888888877776431  11 1111111111111   4679999999999997

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=85.18  E-value=0.17  Score=47.15  Aligned_cols=25  Identities=24%  Similarity=0.297  Sum_probs=22.1

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNYD  254 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~~  254 (431)
                      |.+-|+-|+||||+++.+++.++..
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhc
Confidence            5688999999999999999998653

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.38  E-value=0.18  Score=43.96  Aligned_cols=53  Identities=21%  Similarity=0.203  Sum_probs=34.2

Q ss_pred             cCCCCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC---CCceeEEeCCCCCcHHH
Q 035603          187 EHPATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA---WKRGYLLFGPPGTGKST  242 (431)
Q Consensus       187 ~~p~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPPGtGKTs  242 (431)
                      +.-.+|+++.+.+.+.+.|.+.  . +..+..-....+|   .++.++...|+|||||.
T Consensus        14 ~~~~sF~~l~L~~~l~~~L~~~--g-~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          14 DVTPTFDTMGLREDLLRGIYAY--G-FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             CCCCSGGGGCCCHHHHHHHHHH--T-CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHH
T ss_pred             CCCCCHHHCCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhh
Confidence            3346899999999888887652  1 1122222222221   14789999999999995

>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=83.77  E-value=1  Score=40.69  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=18.5

Q ss_pred             eeEEeCCCCCcHHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~~  250 (431)
                      -+++.|++|+|||+++..++..
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHHh
Confidence            3789999999999998877643

>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=83.14  E-value=0.3  Score=40.30  Aligned_cols=21  Identities=38%  Similarity=0.564  Sum_probs=18.3

Q ss_pred             eeEEeCCCCCcHHHHHHHHHH
Q 035603          229 GYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       229 g~LL~GPPGtGKTsla~aiA~  249 (431)
                      -++|-|..|+|||+|++.+-.
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            378999999999999998754

>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=82.09  E-value=0.92  Score=40.73  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=17.9

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHc
Q 035603          230 YLLFGPPGTGKSTMIAAMANCL  251 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l  251 (431)
                      +++.|++|+|||+|+..++...
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTC
T ss_pred             EeeccCCCCChHHHHHHHHhhh
Confidence            7889999999999987655443

>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=81.99  E-value=0.5  Score=43.33  Aligned_cols=50  Identities=18%  Similarity=0.334  Sum_probs=33.1

Q ss_pred             CCccccccChhhHHHHHHHHHHHHhCHHHHHHhCCCCCceeEEeCCCCCcHHHHH
Q 035603          190 ATFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKAWKRGYLLFGPPGTGKSTMI  244 (431)
Q Consensus       190 ~~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPPGtGKTsla  244 (431)
                      -+||.|.+.+...+++.+.+..++-. ..+    -.+...++-||+.|+|||...
T Consensus        44 f~FD~vf~~~~~q~~vf~~~~~~lv~-~~l----~G~n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          44 YAFDRVFQSSTSQEQVYNDCAKKIVK-DVL----EGYNGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             EECSEEECTTCCHHHHHHHHTHHHHH-HHH----TTCCEEEEEECSTTSSHHHHH
T ss_pred             eECCEEECCCCCHHHHHHHHHHHHHH-HHH----cCCCcceeeecccCCCCceec
Confidence            45788877766666666655444421 111    123457899999999999876

>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=81.75  E-value=0.42  Score=41.71  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=19.7

Q ss_pred             ceeEEeCCCCCcHHHHHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      +.++|+||...|||++.+++|-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            4689999999999999998874

>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=81.48  E-value=0.7  Score=43.73  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHH
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~  249 (431)
                      +-.+.+.|.||+|||||+.+|-+
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            34689999999999999999975

>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=81.45  E-value=0.23  Score=45.72  Aligned_cols=18  Identities=39%  Similarity=0.634  Sum_probs=15.5

Q ss_pred             ceeEEeCCCCCcHHHHHH
Q 035603          228 RGYLLFGPPGTGKSTMIA  245 (431)
Q Consensus       228 rg~LL~GPPGtGKTsla~  245 (431)
                      ...||+|.+|||||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            357999999999999865

>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=81.34  E-value=0.28  Score=42.69  Aligned_cols=34  Identities=26%  Similarity=0.349  Sum_probs=23.0

Q ss_pred             CceeEEeCCCCCcHHHHHHHHHHHc---CCCeEEecc
Q 035603          227 KRGYLLFGPPGTGKSTMIAAMANCL---NYDVYDLEL  260 (431)
Q Consensus       227 ~rg~LL~GPPGtGKTsla~aiA~~l---~~~i~~l~~  260 (431)
                      ++.+++.+|+|+|||..+-..+-.+   |..++.+-.
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            3679999999999998665554432   444554444

>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=81.32  E-value=0.39  Score=41.02  Aligned_cols=57  Identities=16%  Similarity=0.091  Sum_probs=33.7

Q ss_pred             CccccccChhhHHHHHHHHHHHHhCHHHHHHhCCC----CCceeEEeCCCCCcHHHHHHHHHHH
Q 035603          191 TFDTLAMASKKKEAIKKDLIKFTEGKEYYAKIGKA----WKRGYLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       191 ~f~~l~g~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +|+++..++++.+.|.+.  . +..+.......+|    -++.+++..|+|+|||...-..+.+
T Consensus         5 sf~~l~l~~~l~~~l~~~--g-~~~pt~iQ~~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~~~   65 (208)
T d1hv8a1           5 NFNELNLSDNILNAIRNK--G-FEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE   65 (208)
T ss_dssp             CGGGSSCCHHHHHHHHHH--T-CCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             CHHHcCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCCeeeechhcccccceeeccccc
Confidence            788888888887776541  1 1111111111111    1347899999999999876554433

>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=80.87  E-value=0.33  Score=45.03  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=18.6

Q ss_pred             eEEeCCCCCcHHHHHHHHHHHcCC
Q 035603          230 YLLFGPPGTGKSTMIAAMANCLNY  253 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~l~~  253 (431)
                      |-|-|+=|+||||+++.++..++.
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            567899999999999999988754

>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=80.84  E-value=0.38  Score=43.39  Aligned_cols=21  Identities=38%  Similarity=0.623  Sum_probs=19.3

Q ss_pred             eEEeCCCCCcHHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMANC  250 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~~  250 (431)
                      +++.|++|||||+|+.-||+.
T Consensus        71 ~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          71 IGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEECTTSSHHHHHHHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHH
Confidence            899999999999999988865

>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=80.41  E-value=0.35  Score=40.06  Aligned_cols=20  Identities=25%  Similarity=0.449  Sum_probs=18.2

Q ss_pred             eEEeCCCCCcHHHHHHHHHH
Q 035603          230 YLLFGPPGTGKSTMIAAMAN  249 (431)
Q Consensus       230 ~LL~GPPGtGKTsla~aiA~  249 (431)
                      +=+.|+|++|||||..+|.+
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            66899999999999999975