Psyllid ID: psy5595

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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---
Protein Sequence
MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVGASI
Secondary Structure (PSIPRED)
cccccccccccccccccHHHccccccccccccccccccccccccccccccHHHcccccccccccEEEEcccccHHHHHHHHHHHHcccccccccccccccccEEEEEEEccccHHHHHHHHHHHHHccccccEEEEEEcccccHHHHHHcccccccHHHHHHHccccEEEEEEcccHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHccccccccEEEEccEEEccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccHcHccccccccccccEEEEEccccccEccccccccccHHHHHccccccccccEEEEcccccccHHHHHHHHHHccccEEEEHHEEccccccEEEEEEEEcccHHHHHHHHHHHHHcccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHccccEEEEEEccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccccccEcEcEEEEEccccEEEEccccEEEccEcccccEEEccccEEEEccEEEEccccHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mkavvgeealtpddlLYLEFLTKFEKNFVsqegersftprdligdssgkrAIDVMNSIargqkipifsaaglphnEIAAQICRQaglvkmpgksvlddseDNFAIVFAAMGVNMETARFFKqdfeengsmeNVCLFLNlandptieriitprlALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAReevpgrrgfpgymyTNLATIYERagrvegrngsitqipiltmpnddfkvsaareevpgrrgfpgymyTNLATIYERagrvegrngsitqipiltmpndvgasi
Flexible Loop (DISEMBL)
mkavvgeealtpddllYLEFLTKFEKNFvsqegersftprdligdssgKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAareevpgrrgfpgymYTNLATIYERAGRVEGRNGSITqipiltmpnddfKVSAAReevpgrrgfpgymYTNLATIYERAgrvegrngsitqipiltmpndvgasi
Low Complexity Region (SEG)
MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVGASI
Disordered region (IsUnstruct)
*********LTPDDLLYLEFLTKFEKNFV*********************AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPIL**********
Disordered Region (DISOPRED)
MKAVVGEEALTPDDLLYLEFLTKFEKN******************SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVS*****VPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPN*V****
Disordered Region (DISEMBL)
MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVGASI
Disordered Region (DISPRO)
*****GEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPI***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVGASI
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	293	2.2.26 [Sep-21-2011]
P31401	494	V-type proton ATPase subu	N/A	N/A	0.672	0.398	0.929	1e-105
P31410	494	V-type proton ATPase subu	N/A	N/A	0.672	0.398	0.929	1e-105
P31409	490	V-type proton ATPase subu	yes	N/A	0.672	0.402	0.924	1e-104
P62815	511	V-type proton ATPase subu	yes	N/A	0.668	0.383	0.894	3e-98
P62814	511	V-type proton ATPase subu	yes	N/A	0.668	0.383	0.894	3e-98
P31408	511	V-type proton ATPase subu	yes	N/A	0.668	0.383	0.894	3e-98
Q5R5V5	511	V-type proton ATPase subu	yes	N/A	0.668	0.383	0.894	4e-98
P21281	511	V-type proton ATPase subu	yes	N/A	0.668	0.383	0.894	4e-98
P49712	453	V-type proton ATPase subu	no	N/A	0.668	0.432	0.894	4e-98
P31407	513	V-type proton ATPase subu	no	N/A	0.703	0.401	0.831	9e-97

>sp|P31401|VATB_MANSE V-type proton ATPase subunit B OS=Manduca sexta GN=VHA55 PE=2 SV=1

 Score =  381 bits (978), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Vacuolar ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells. The B subunit is non-catalytic but combines with other subunits to form the catalytic complex. V-ATPase is responsible for energizing electrophoretic K(+)/2H(+) antiport by generating a transmembrane voltage of more than 200mV.
Manduca sexta (taxid: 7130)

>sp|P31410|VATB_HELVI V-type proton ATPase subunit B OS=Heliothis virescens GN=VHA55 PE=2 SV=1

 Score =  381 bits (978), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Heliothis virescens (taxid: 7102)

>sp|P31409|VATB_DROME V-type proton ATPase subunit B OS=Drosophila melanogaster GN=Vha55 PE=2 SV=1

 Score =  379 bits (972), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 184/199 (92%), Positives = 189/199 (94%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 145 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPGKSVLDD 202

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             DNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 203 HTDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 262

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 263 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 322

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 323 GRNGSITQIPILTMPNDDI 341

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Drosophila melanogaster (taxid: 7227)

>sp|P62815|VATB2_RAT V-type proton ATPase subunit B, brain isoform OS=Rattus norvegicus GN=Atp6v1b2 PE=1 SV=1

 Score =  358 bits (919), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 343 GRNGSITQIPILTMPNDDI 361

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Rattus norvegicus (taxid: 10116)

>sp|P62814|VATB2_MOUSE V-type proton ATPase subunit B, brain isoform OS=Mus musculus GN=Atp6v1b2 PE=1 SV=1

 Score =  358 bits (919), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 343 GRNGSITQIPILTMPNDDI 361

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Mus musculus (taxid: 10090)

>sp|P31408|VATB2_BOVIN V-type proton ATPase subunit B, brain isoform OS=Bos taurus GN=ATP6V1B2 PE=1 SV=3

 Score =  358 bits (918), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 343 GRNGSITQIPILTMPNDDI 361

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Bos taurus (taxid: 9913)

>sp|Q5R5V5|VATB2_PONAB V-type proton ATPase subunit B, brain isoform OS=Pongo abelii GN=ATP6V1B2 PE=2 SV=1

 Score =  358 bits (918), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 343 GRNGSITQIPILTMPNDDI 361

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Pongo abelii (taxid: 9601)

>sp|P21281|VATB2_HUMAN V-type proton ATPase subunit B, brain isoform OS=Homo sapiens GN=ATP6V1B2 PE=1 SV=3

 Score =  358 bits (918), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 343 GRNGSITQIPILTMPNDDI 361

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Homo sapiens (taxid: 9606)

>sp|P49712|VATB_CHICK V-type proton ATPase subunit B OS=Gallus gallus GN=ATP6V1B PE=3 SV=1

 Score =  357 bits (917), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 178/199 (89%), Positives = 185/199 (92%), Gaps = 3/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct: 107 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVMDY 163

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 164 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 223

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 224 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 283

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 284 GRNGSITQIPILTMPNDDI 302

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Gallus gallus (taxid: 9031)

>sp|P31407|VATB1_BOVIN V-type proton ATPase subunit B, kidney isoform OS=Bos taurus GN=ATP6V1B1 PE=1 SV=1

 Score =  353 bits (906), Expect = 9e-97,   Method: Compositional matrix adjust.
 Identities = 178/214 (83%), Positives = 187/214 (87%), Gaps = 8/214 (3%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G   IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K+VLD 
Sbjct: 160 PEEMI--ETGISPIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKAVLDY 216

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +DNFAIVFAAMGVNMETARFFK DFE+NG+M NVCLFLNLANDPTIERIITPRLALTTA
Sbjct: 217 HDDNFAIVFAAMGVNMETARFFKSDFEQNGTMGNVCLFLNLANDPTIERIITPRLALTTA 276

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 277 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 336

Query: 219 GRNGSITQIPILTMPNDDFKVSAAREEVPGRRGF 252
           GR GSITQIPILTMPNDD         +P   GF
Sbjct: 337 GRGGSITQIPILTMPNDDIT-----HPIPDLTGF 365

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.

Bos taurus (taxid: 9913)

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	293
242011359	496	vacuolar ATP synthase subunit B, putativ	0.672	0.397	0.929	1e-103
190407685	494	vacuolar ATPase B subunit [Bombyx mori]	0.672	0.398	0.929	1e-103
148298717	490	vacuolar ATP synthase subunit B [Bombyx	0.672	0.402	0.929	1e-103
302138846	494	vacuolar V-type H(+)-ATPase B subunit [H	0.672	0.398	0.929	1e-103
401327	494	RecName: Full=V-type proton ATPase subun	0.672	0.398	0.929	1e-103
357610870	494	V-type proton ATPase subunit B [Danaus p	0.672	0.398	0.929	1e-103
401326	494	RecName: Full=V-type proton ATPase subun	0.672	0.398	0.929	1e-103
289743715	488	vacuolar H+-ATPase v1 sector subunit B [	0.672	0.403	0.929	1e-103
124487673	390	putative vacuolar ATP synthase subunit B	0.668	0.502	0.929	1e-103
389608757	494	vacuolar H[+]-ATPase 55kD B subunit [Pap	0.672	0.398	0.924	1e-103

>gi|242011359|ref|XP_002426420.1| vacuolar ATP synthase subunit B, putative [Pediculus humanus corporis] gi|212510519|gb|EEB13682.1| vacuolar ATP synthase subunit B, putative [Pediculus humanus corporis]

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 191/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 147 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPGKSVLDD 204

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           S+DNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 205 SQDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 264

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 265 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 324

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 325 GRNGSITQIPILTMPNDDI 343

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|190407685|gb|ACE78271.1| vacuolar ATPase B subunit [Bombyx mori]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKVPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|148298717|ref|NP_001091828.1| vacuolar ATP synthase subunit B [Bombyx mori] gi|118500417|gb|ABK97410.1| vacuolar ATP synthase subunit B [Bombyx mori]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKVPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|302138846|gb|ADK94761.1| vacuolar V-type H(+)-ATPase B subunit [Helicoverpa armigera]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Helicoverpa armigera

Species: Helicoverpa armigera

Genus: Helicoverpa

Family: Noctuidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|401327|sp|P31401.1|VATB_MANSE RecName: Full=V-type proton ATPase subunit B; Short=V-ATPase subunit B; AltName: Full=Vacuolar proton pump subunit B gi|9714|emb|CAA45706.1| H(+)-transporting ATPase [Manduca sexta]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Manduca sexta

Species: Manduca sexta

Genus: Manduca

Family: Sphingidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357610870|gb|EHJ67186.1| V-type proton ATPase subunit B [Danaus plexippus]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKVPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|401326|sp|P31410.1|VATB_HELVI RecName: Full=V-type proton ATPase subunit B; Short=V-ATPase subunit B; AltName: Full=Vacuolar proton pump subunit B gi|237459|gb|AAB20098.1| vacuolar (V-type) H(+)-ATPase B subunit [Heliothis virescens]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Heliothis virescens

Species: Heliothis virescens

Genus: Heliothis

Family: Noctuidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289743715|gb|ADD20605.1| vacuolar H+-ATPase v1 sector subunit B [Glossina morsitans morsitans]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 143 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKIPGKSVLDD 200

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 201 QEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 260

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 261 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 320

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 321 GRNGSITQIPILTMPNDDI 339

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|124487673|gb|ABN11925.1| putative vacuolar ATP synthase subunit B [Maconellicoccus hirsutus]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 184/198 (92%), Positives = 192/198 (96%), Gaps = 2/198 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+++I   +G  AID+MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGK+VLDD
Sbjct: 40  PQEMI--QTGISAIDIMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPGKAVLDD 97

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 98  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 157

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 158 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 217

Query: 219 GRNGSITQIPILTMPNDD 236
           GRNGSITQIPILTMPNDD
Sbjct: 218 GRNGSITQIPILTMPNDD 235

Source: Maconellicoccus hirsutus

Species: Maconellicoccus hirsutus

Genus: Maconellicoccus

Family: Pseudococcidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389608757|dbj|BAM17990.1| vacuolar H[+]-ATPase 55kD B subunit [Papilio xuthus]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 184/199 (92%), Positives = 190/199 (95%), Gaps = 2/199 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQK+PIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct: 149 PEEMI--QTGISAIDVMNSIARGQKVPIFSAAGLPHNEIAAQICRQAGLVKVPGKSVLDD 206

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct: 207 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 266

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query: 219 GRNGSITQIPILTMPNDDF 237
           GRNGSITQIPILTMPNDD 
Sbjct: 327 GRNGSITQIPILTMPNDDI 345

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

---

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	293
FB|FBgn0005671	490	Vha55 "Vacuolar H[+]-ATPase 55	0.668	0.4	0.929	2.1e-93
UNIPROTKB|F1NID6	453	ATP6V1B2 "Uncharacterized prot	0.665	0.430	0.898	7.5e-89
UNIPROTKB|F1NU21	512	ATP6V1B2 "Uncharacterized prot	0.665	0.380	0.898	7.5e-89
UNIPROTKB|P49712	453	ATP6V1B "V-type proton ATPase	0.665	0.430	0.898	7.5e-89
UNIPROTKB|Q9I8A2	496	VATB "Vacuolar H-ATPase B subu	0.665	0.393	0.898	7.5e-89
MGI|MGI:109618	511	Atp6v1b2 "ATPase, H+ transport	0.665	0.381	0.898	9.6e-89
RGD|620284	511	Atp6v1b2 "ATPase, H transporti	0.665	0.381	0.898	9.6e-89
UNIPROTKB|P31408	511	ATP6V1B2 "V-type proton ATPase	0.665	0.381	0.898	9.6e-89
UNIPROTKB|P21281	511	ATP6V1B2 "V-type proton ATPase	0.665	0.381	0.898	9.6e-89
UNIPROTKB|F1RMZ8	511	LOC100739134 "Uncharacterized	0.665	0.381	0.898	9.6e-89

FB|FBgn0005671 Vha55 "Vacuolar H[+]-ATPase 55kD subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 930 (332.4 bits), Expect = 2.1e-93, P = 2.1e-93
 Identities = 184/198 (92%), Positives = 189/198 (95%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+PGKSVLDD
Sbjct:   145 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPGKSVLDD 202

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
               DNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT A
Sbjct:   203 HTDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTAA 262

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   263 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 322

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   323 GRNGSITQIPILTMPNDD 340

GO:0000221 "vacuolar proton-transporting V-type ATPase, V1 domain" evidence=ISS;NAS

GO:0015992 "proton transport" evidence=NAS

GO:0005524 "ATP binding" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0033181 "plasma membrane proton-transporting V-type ATPase complex" evidence=IMP

GO:0005769 "early endosome" evidence=IDA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IGI;IDA

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

GO:0005903 "brush border" evidence=IDA

GO:0007035 "vacuolar acidification" evidence=IDA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IGI

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|F1NID6 ATP6V1B2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   107 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVMDY 163

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   164 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 223

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   224 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 283

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   284 GRNGSITQIPILTMPNDD 301

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

UNIPROTKB|F1NU21 ATP6V1B2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVMDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005902 "microvillus" evidence=IEA

UNIPROTKB|P49712 ATP6V1B "V-type proton ATPase subunit B" [Gallus gallus (taxid:9031)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   107 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVMDY 163

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   164 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 223

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   224 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 283

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   284 GRNGSITQIPILTMPNDD 301

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

UNIPROTKB|Q9I8A2 VATB "Vacuolar H-ATPase B subunit osteoclast isozyme" [Gallus gallus (taxid:9031)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   150 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVMDY 206

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   207 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 266

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   267 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 326

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   327 GRNGSITQIPILTMPNDD 344

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005902 "microvillus" evidence=IEA

MGI|MGI:109618 Atp6v1b2 "ATPase, H+ transporting, lysosomal V1 subunit B2" [Mus musculus (taxid:10090)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005902 "microvillus" evidence=IDA

GO:0006810 "transport" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0015992 "proton transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033178 "proton-transporting two-sector ATPase complex, catalytic domain" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

RGD|620284 Atp6v1b2 "ATPase, H transporting, lysosomal V1 subunit B2" [Rattus norvegicus (taxid:10116)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005794 "Golgi apparatus" evidence=IEA;ISO

GO:0005829 "cytosol" evidence=ISO;ISS

GO:0005886 "plasma membrane" evidence=ISO;ISS

GO:0005902 "microvillus" evidence=IEA;ISO

GO:0007035 "vacuolar acidification" evidence=TAS

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IDA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0030641 "regulation of cellular pH" evidence=TAS

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0042470 "melanosome" evidence=IEA

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0046034 "ATP metabolic process" evidence=IEA

UNIPROTKB|P31408 ATP6V1B2 "V-type proton ATPase subunit B, brain isoform" [Bos taurus (taxid:9913)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0005829 "cytosol" evidence=ISS

GO:0005886 "plasma membrane" evidence=ISS

GO:0042470 "melanosome" evidence=IEA

GO:0012505 "endomembrane system" evidence=IEA

GO:0005902 "microvillus" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|P21281 ATP6V1B2 "V-type proton ATPase subunit B, brain isoform" [Homo sapiens (taxid:9606)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0005902 "microvillus" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0012505 "endomembrane system" evidence=IEA

GO:0042470 "melanosome" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISS

GO:0005829 "cytosol" evidence=ISS;TAS

GO:0015078 "hydrogen ion transmembrane transporter activity" evidence=TAS

GO:0015992 "proton transport" evidence=TAS

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=TAS

GO:0006879 "cellular iron ion homeostasis" evidence=TAS

GO:0008286 "insulin receptor signaling pathway" evidence=TAS

GO:0033572 "transferrin transport" evidence=TAS

GO:0051701 "interaction with host" evidence=TAS

GO:0055085 "transmembrane transport" evidence=TAS

GO:0090382 "phagosome maturation" evidence=TAS

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

UNIPROTKB|F1RMZ8 LOC100739134 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 178/198 (89%), Positives = 185/198 (93%)

Query:    39 PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
             P ++I   +G  AID MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK   K V+D 
Sbjct:   166 PEEMI--QTGISAIDGMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKK-SKDVVDY 222

Query:    99 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             SE+NFAIVFAAMGVNMETARFFK DFEENGSM+NVCLFLNLANDPTIERIITPRLALTTA
Sbjct:   223 SEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERIITPRLALTTA 282

Query:   159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
             EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct:   283 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 342

Query:   219 GRNGSITQIPILTMPNDD 236
             GRNGSITQIPILTMPNDD
Sbjct:   343 GRNGSITQIPILTMPNDD 360

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0033180 "proton-transporting V-type ATPase, V1 domain" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5JIR2	VATB_PYRKO	No assigned EC number	0.6532	0.6416	0.4043	yes	N/A
B5XJH4	VATB_STRPZ	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
Q8SR34	VATB_ENCCU	No assigned EC number	0.7889	0.6655	0.4088	yes	N/A
P31408	VATB2_BOVIN	No assigned EC number	0.8944	0.6689	0.3835	yes	N/A
P31409	VATB_DROME	No assigned EC number	0.9246	0.6723	0.4020	yes	N/A
P62815	VATB2_RAT	No assigned EC number	0.8944	0.6689	0.3835	yes	N/A
P62814	VATB2_MOUSE	No assigned EC number	0.8944	0.6689	0.3835	yes	N/A
P31401	VATB_MANSE	No assigned EC number	0.9296	0.6723	0.3987	N/A	N/A
Q9SZN1	VATB2_ARATH	No assigned EC number	0.8164	0.6860	0.4127	yes	N/A
Q76NU1	VATB_DICDI	No assigned EC number	0.8341	0.6723	0.3995	yes	N/A
Q1JIX4	VATB_STRPD	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
A0PZC7	VATB_CLONN	No assigned EC number	0.6387	0.6211	0.3956	yes	N/A
Q5R5V5	VATB2_PONAB	No assigned EC number	0.8944	0.6689	0.3835	yes	N/A
B6YV15	VATB_THEON	No assigned EC number	0.6532	0.6416	0.4043	yes	N/A
A2SST6	VATB_METLZ	No assigned EC number	0.635	0.6450	0.4126	yes	N/A
Q25691	VATB_PLAFA	No assigned EC number	0.7889	0.6655	0.3947	yes	N/A
P0DA09	VATB_STRPQ	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
O57729	VATB_PYRHO	No assigned EC number	0.6532	0.6416	0.4043	yes	N/A
P21281	VATB2_HUMAN	No assigned EC number	0.8944	0.6689	0.3835	yes	N/A
Q9UXU8	VATB_PYRAB	No assigned EC number	0.6432	0.6416	0.4069	yes	N/A
Q19626	VATB_CAEEL	No assigned EC number	0.8442	0.6621	0.3951	yes	N/A
P16140	VATB_YEAST	No assigned EC number	0.8341	0.6689	0.3791	yes	N/A
C5A337	VATB_THEGJ	No assigned EC number	0.6532	0.6416	0.4060	yes	N/A
A2RC98	VATB_STRPG	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
P31411	VATB_SCHPO	No assigned EC number	0.8190	0.6723	0.3916	yes	N/A
P31410	VATB_HELVI	No assigned EC number	0.9296	0.6723	0.3987	N/A	N/A
Q1JDW9	VATB_STRPB	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
Q8U4A5	VATB_PYRFU	No assigned EC number	0.6532	0.6416	0.4069	yes	N/A
Q8W4E2	VATB3_ARATH	No assigned EC number	0.8076	0.6860	0.4127	yes	N/A
P11574	VATB1_ARATH	No assigned EC number	0.8164	0.6860	0.4135	yes	N/A
Q1J8S4	VATB_STRPF	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A
Q1JNS7	VATB_STRPC	No assigned EC number	0.6302	0.6245	0.3885	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	293
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	1e-152
cd01135	276	cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-	1e-131
PRK04196	460	PRK04196, PRK04196, V-type ATP synthase subunit B;	1e-120
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	1e-115
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	1e-102
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	7e-65
PRK02118	436	PRK02118, PRK02118, V-type ATP synthase subunit B;	2e-50
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	9e-17
TIGR02546	422	TIGR02546, III_secr_ATP, type III secretion appara	1e-16
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	4e-16
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	8e-16
TIGR01043	578	TIGR01043, ATP_syn_A_arch, ATP synthase archaeal,	5e-14
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	6e-14
COG1155	588	COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase su	2e-13
cd01134	369	cd01134, V_A-ATPase_A, V/A-type ATP synthase catal	2e-13
PRK14698	1017	PRK14698, PRK14698, V-type ATP synthase subunit A;	3e-13
PRK06820	440	PRK06820, PRK06820, type III secretion system ATPa	5e-13
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	1e-12
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	1e-12
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	1e-12
TIGR01042	591	TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A	1e-12
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	2e-12
PRK06936	439	PRK06936, PRK06936, type III secretion system ATPa	2e-12
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	1e-11
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	1e-11
PRK08149	428	PRK08149, PRK08149, ATP synthase SpaL; Validated	1e-11
PRK04192	586	PRK04192, PRK04192, V-type ATP synthase subunit A;	5e-11
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	7e-11
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	1e-10
PRK07594	433	PRK07594, PRK07594, type III secretion system ATPa	2e-10
PRK06002	450	PRK06002, fliI, flagellum-specific ATP synthase; V	2e-10
TIGR03498	418	TIGR03498, FliI_clade3, flagellar protein export A	6e-10
TIGR03496	411	TIGR03496, FliI_clade1, flagellar protein export A	7e-10
PRK05922	434	PRK05922, PRK05922, type III secretion system ATPa	2e-09
TIGR03305	449	TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase,	5e-09
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	5e-09
PRK06793	432	PRK06793, fliI, flagellum-specific ATP synthase; V	1e-08
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	1e-08
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	1e-08
PRK12597	461	PRK12597, PRK12597, F0F1 ATP synthase subunit beta	2e-08
PRK09099	441	PRK09099, PRK09099, type III secretion system ATPa	5e-08
PRK05688	451	PRK05688, fliI, flagellum-specific ATP synthase; V	9e-08
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	1e-07
PRK08472	434	PRK08472, fliI, flagellum-specific ATP synthase; V	1e-07
cd01133	274	cd01133, F1-ATPase_beta, F1 ATP synthase beta subu	4e-07
PRK07960	455	PRK07960, fliI, flagellum-specific ATP synthase; V	1e-06
cd01134	369	cd01134, V_A-ATPase_A, V/A-type ATP synthase catal	3e-06
TIGR01043	578	TIGR01043, ATP_syn_A_arch, ATP synthase archaeal,	8e-06
PRK08972	444	PRK08972, fliI, flagellum-specific ATP synthase; V	9e-06
PRK04192	586	PRK04192, PRK04192, V-type ATP synthase subunit A;	1e-05
PRK07196	434	PRK07196, fliI, flagellum-specific ATP synthase; V	3e-05
TIGR01039	461	TIGR01039, atpD, ATP synthase, F1 beta subunit	4e-05
PRK14698	1017	PRK14698, PRK14698, V-type ATP synthase subunit A;	5e-05
COG0055	468	COG0055, AtpD, F0F1-type ATP synthase, beta subuni	6e-05
PRK08927	442	PRK08927, fliI, flagellum-specific ATP synthase; V	8e-05
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	9e-05
PRK04196	460	PRK04196, PRK04196, V-type ATP synthase subunit B;	1e-04
PRK07721	438	PRK07721, fliI, flagellum-specific ATP synthase; V	4e-04
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	0.002

>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit

 Score =  433 bits (1115), Expect = e-152
 Identities = 179/198 (90%), Positives = 186/198 (93%), Gaps = 2/198 (1%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVK+P K V D 
Sbjct: 121 PEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDG 178

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            EDNFAIVFAAMGVNMETARFFKQDFEENGSME VCLFLNLANDPTIERIITPRLALTTA
Sbjct: 179 HEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTA 238

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAYQCEKHVLVILTDMSSYA+ALREVSAAREEVPGRRGFPGYMYT+LATIYERAGRVE
Sbjct: 239 EYLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE 298

Query: 219 GRNGSITQIPILTMPNDD 236
           GRNGSITQIPILTMPNDD
Sbjct: 299 GRNGSITQIPILTMPNDD 316

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 466

>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic) subunit B

 Score =  373 bits (959), Expect = e-131
 Identities = 148/198 (74%), Positives = 169/198 (85%), Gaps = 11/198 (5%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P ++I   +G  AID MN++ RGQKIPIFS +GLPHNE+AAQI RQAG+V          
Sbjct: 49  PEEMI--QTGISAIDGMNTLVRGQKIPIFSGSGLPHNELAAQIARQAGVVG--------- 97

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            E+NFA+VFAAMG+ ME ARFFK DFEE G++E V LFLNLANDPTIERIITPR+ALTTA
Sbjct: 98  EEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTA 157

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+  KHVLVILTDM++YAEALRE+SAAREEVPGRRG+PGYMYT+LATIYERAGRVE
Sbjct: 158 EYLAYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVE 217

Query: 219 GRNGSITQIPILTMPNDD 236
           GRNGSITQIPILTMPNDD
Sbjct: 218 GRNGSITQIPILTMPNDD 235

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit. Length = 276

>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional

 Score =  352 bits (906), Expect = e-120
 Identities = 129/198 (65%), Positives = 160/198 (80%), Gaps = 11/198 (5%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P + I   +G  AID +N++ RGQK+PIFS +GLPHNE+AAQI RQA   K+ G      
Sbjct: 123 PEEFI--QTGISAIDGLNTLVRGQKLPIFSGSGLPHNELAAQIARQA---KVLG------ 171

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            E+NFA+VFAAMG+  E A FF +DFEE G++E   +FLNLA+DP IERI+TPR+ALT A
Sbjct: 172 EEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAA 231

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LA++   HVLVILTDM++Y EALRE+SAAREEVPGRRG+PGYMYT+LATIYERAGR++
Sbjct: 232 EYLAFEKGMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIK 291

Query: 219 GRNGSITQIPILTMPNDD 236
           G+ GSITQIPILTMP+DD
Sbjct: 292 GKKGSITQIPILTMPDDD 309

Length = 460

>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

 Score =  340 bits (875), Expect = e-115
 Identities = 128/198 (64%), Positives = 156/198 (78%), Gaps = 11/198 (5%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P + I   +G  AID MN++ RGQK+PIFS +GLPHNE+AAQI RQA +         D 
Sbjct: 126 PEEFI--QTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQATV---------DG 174

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            E+ FA+VFAAMG+  E A FF  +FEE G+++   LFLNLA+DP +ERIITPR+ALT A
Sbjct: 175 EEEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVA 234

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LA++ + HVLVILTDM++Y EALRE+SAAREEVPGRRG+PGYMYT+LATIYERAGR+ 
Sbjct: 235 EYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIR 294

Query: 219 GRNGSITQIPILTMPNDD 236
           GR GSITQIPILTMP DD
Sbjct: 295 GRKGSITQIPILTMPGDD 312

Length = 463

>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit

 Score =  305 bits (782), Expect = e-102
 Identities = 127/198 (64%), Positives = 157/198 (79%), Gaps = 11/198 (5%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P + I   +G  AID MN++ RGQK+PIFS +GLPHNE+AAQI RQA    + G      
Sbjct: 121 PEEFI--QTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQA---TVRG------ 169

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            E  FA+VFAAMG+  E A FF +DFEE G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 170 EESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAA 229

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LA++ + HVLVILTDM++Y EALRE+SAAREEVPGRRG+PGYMYT+LATIYERAGRV+
Sbjct: 230 EYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVK 289

Query: 219 GRNGSITQIPILTMPNDD 236
           G+ GSITQ+PILTMP DD
Sbjct: 290 GKKGSITQMPILTMPGDD 307

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 458

>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain

 Score =  202 bits (516), Expect = 7e-65
 Identities = 62/190 (32%), Positives = 99/190 (52%), Gaps = 16/190 (8%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G RAID++  I +GQ+I IF  +G     +   I R A              + +   V+
Sbjct: 2   GIRAIDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNA--------------KADVVEVY 47

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
             +G        F ++    G+++   +    +++P  ER + P  ALT AE+   Q  K
Sbjct: 48  VLIGERGREVAEFIEELLGEGALKRTVVVAATSDEPPAERYLAPYTALTIAEYFRDQ-GK 106

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQI 227
            VL++L  ++ +A ALRE+S    E PGR G+PG ++++LA + ERAG+VEG  GSIT +
Sbjct: 107 DVLLLLDSLTRFARALREISLLLGEPPGREGYPGSLFSDLARLLERAGKVEG-GGSITAL 165

Query: 228 PILTMPNDDF 237
           P + +P  D 
Sbjct: 166 PTVLVPGGDI 175

This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213

>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional

 Score =  171 bits (436), Expect = 2e-50
 Identities = 77/198 (38%), Positives = 120/198 (60%), Gaps = 18/198 (9%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           PR++I   +G   IDV N++   QKIPIFS +G P+N + A+I  QA             
Sbjct: 120 PREMI--RTGIPMIDVFNTLVESQKIPIFSVSGEPYNALLARIALQA------------- 164

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
             +   I+   MG+  +   FFK  FE  G+++   +F++ A+DP +E ++ P +AL  A
Sbjct: 165 --EADIIILGGMGLTFDDYLFFKDTFENAGALDRTVMFIHTASDPPVECLLVPDMALAVA 222

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E  A + +K VLV+LTDM+++A+AL+E+S   +++P  RG+PG +Y++LA+ YE+A   E
Sbjct: 223 EKFALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNRGYPGSLYSDLASRYEKAVDFE 282

Query: 219 GRNGSITQIPILTMPNDD 236
              GSIT I + TMP DD
Sbjct: 283 D-GGSITIIAVTTMPGDD 299

Length = 436

>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

 Score = 79.6 bits (197), Expect = 9e-17
 Identities = 60/223 (26%), Positives = 96/223 (43%), Gaps = 41/223 (18%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G +AID +  I RGQ+  I                RQ G   +   ++++        ++
Sbjct: 149 GIKAIDALIPIGRGQRELIIGD-------------RQTGKTAIAIDTIINQKGSGVKCIY 195

Query: 108 AAMGVNMET-ARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
            A+G    T A   +   EE+G+M+   +    A+D    + + P      AE+      
Sbjct: 196 VAIGQKRSTVANVVRT-LEEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDN-G 253

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRVEGRN-- 221
           K VL++  D+S +A A RE+S      PGR  +PG   Y+++ L    ERA ++      
Sbjct: 254 KDVLIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRL---LERAAKLSDELGG 310

Query: 222 GSITQIPIL-TMPNDDFKVSAAREEVPGRRGFPGYMYTNLATI 263
           GSIT +PI+ T   D   VSA             Y+ TN+ +I
Sbjct: 311 GSITALPIIETQAGD---VSA-------------YIPTNVISI 337

Length = 504

>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus H+-transporting two-sector ATPase

 Score = 78.9 bits (195), Expect = 1e-16
 Identities = 58/186 (31%), Positives = 91/186 (48%), Gaps = 26/186 (13%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G RAID + +   GQ+I IF+ AG+  + +   I R A             S D    
Sbjct: 130 PTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTLLGMIARGA-------------SAD--VN 174

Query: 106 VFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           V A +G   E  R    F +    E G   +V L ++ ++ P++ER+     A   AE+ 
Sbjct: 175 VIALIG---ERGREVREFIEHHLGEEGRKRSV-LVVSTSDRPSLERLKAAYTATAIAEYF 230

Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             Q  K VL+++  ++ +A ALRE+  A  E P R G+P  ++++L  + ERAG  E   
Sbjct: 231 RDQ-GKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLPRLLERAGNGE--K 287

Query: 222 GSITQI 227
           GSIT +
Sbjct: 288 GSITAL 293

[Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 422

>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 77.6 bits (192), Expect = 4e-16
 Identities = 54/190 (28%), Positives = 87/190 (45%), Gaps = 38/190 (20%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL------DDSED 101
           G RAID + +  +GQ+I IF+ +G+                   GKS L      +   D
Sbjct: 150 GVRAIDGLLTCGKGQRIGIFAGSGV-------------------GKSTLLGMIARNTEAD 190

Query: 102 NFAIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTT 157
               V A +G   E  R    F ++D  E G ++   + +  +++  + R+     A T 
Sbjct: 191 --VNVIALIG---ERGREVREFIEKDLGEEG-LKRSVVVVATSDESALMRLKAAFTATTI 244

Query: 158 AEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV 217
           AE+   Q  K VL+I+  ++ +A A RE+  A  E P  +G+P  +++ L  + ERAG  
Sbjct: 245 AEYFRDQ-GKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAG-- 301

Query: 218 EGRNGSITQI 227
            G  GSIT  
Sbjct: 302 NGDKGSITAF 311

Length = 441

>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha subunit

 Score = 76.7 bits (189), Expect = 8e-16
 Identities = 57/201 (28%), Positives = 90/201 (44%), Gaps = 26/201 (12%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G +AID M  I RGQ+  I                RQ G   +   ++++  + +   +
Sbjct: 147 TGIKAIDAMIPIGRGQRELIIGD-------------RQTGKTAVAIDTIINQKDSDVYCI 193

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G    T     +  EE+G+M    +    A+D    + + P    T  E+      
Sbjct: 194 YVAIGQKASTVAQVVRKLEEHGAMAYTIVVAATASDSASLQYLAPYTGCTMGEYFRDN-G 252

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRV--EGRN 221
           KH L+I  D+S  A A R++S      PGR  FPG   Y+++ L    ERA ++  E   
Sbjct: 253 KHALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRL---LERAAKLNDEKGG 309

Query: 222 GSITQIPIL-TMPNDDFKVSA 241
           GS+T +PI+ T   D   VSA
Sbjct: 310 GSLTALPIIETQAGD---VSA 327

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 501

>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit

 Score = 71.7 bits (176), Expect = 5e-14
 Identities = 44/116 (37%), Positives = 61/116 (52%), Gaps = 12/116 (10%)

Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEF---LAYQCEKHVLVILTDMSSYAEALREV 186
           ME   L  N +N P   R  +    +T AE+   + Y     V ++    S +AEA+RE+
Sbjct: 283 MERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYD----VALMADSTSRWAEAMREI 338

Query: 187 SAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
           S   EE+PG  G+P Y+ + LA  YERAGRV     E R GS+T I  ++ P  DF
Sbjct: 339 SGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVIGAVSPPGGDF 394

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 578

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 67.9 bits (166), Expect = 6e-14
 Identities = 35/174 (20%), Positives = 61/174 (35%), Gaps = 34/174 (19%)

Query: 63  KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQ 122
            I +F   G     +A Q+          GK           +V+  +   +E       
Sbjct: 1   LILVFGPTGSGKTTLALQLALNI--ATKGGK-----------VVYVDIEEEIEELTERLI 47

Query: 123 DFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA 182
                G+++N+ +    A+DP   R+        +      +     L+IL +++    A
Sbjct: 48  GESLKGALDNLIIVFATADDPAAARL-------LSKAERLRERGGDDLIILDELTRLVRA 100

Query: 183 LREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDD 236
           LRE+             PG +   L  + ERA     R G +T I  L +P+ D
Sbjct: 101 LREIREGY---------PGELDEELRELLERA-----RKGGVTVIFTLQVPSGD 140

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. Length = 165

>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

 Score = 70.0 bits (172), Expect = 2e-13
 Identities = 44/113 (38%), Positives = 59/113 (52%), Gaps = 6/113 (5%)

Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAA 189
           M+   L  N +N P   R  +    +T AE+        V ++    S +AEALRE+S  
Sbjct: 285 MDRTVLIANTSNMPVAAREASIYTGITIAEYYR-DMGYDVALMADSTSRWAEALREISGR 343

Query: 190 REEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
            EE+PG  G+P Y+ + LA  YERAGRV     E R GSIT I  ++ P  DF
Sbjct: 344 LEEMPGEEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSITVIGAVSPPGGDF 396

Length = 588

>gnl|CDD|238554 cd01134, V_A-ATPase_A, V/A-type ATP synthase catalytic subunit A

 Score = 69.2 bits (170), Expect = 2e-13
 Identities = 44/117 (37%), Positives = 62/117 (52%), Gaps = 12/117 (10%)

Query: 130 MENVCLFLNLANDPTIER---IITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREV 186
           M+   L  N +N P   R   I T    +T AE+       +V ++    S +AEALRE+
Sbjct: 218 MKRTVLIANTSNMPVAAREASIYT---GITIAEYFRDM-GYNVALMADSTSRWAEALREI 273

Query: 187 SAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDDFK 238
           S   EE+PG  G+P Y+   LA+ YERAGRV+     GR GS+T +  ++ P  DF 
Sbjct: 274 SGRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIVGAVSPPGGDFS 330

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. Length = 369

>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional

 Score = 69.7 bits (170), Expect = 3e-13
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)

Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 717 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 774

Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 775 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 828

Length = 1017

>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated

 Score = 68.7 bits (168), Expect = 5e-13
 Identities = 59/208 (28%), Positives = 90/208 (43%), Gaps = 22/208 (10%)

Query: 40  RDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD 97
           R  I    ++G RAID + S   GQ+I IF+AAG+  + +   +C               
Sbjct: 140 RQPIEQMLTTGIRAIDGILSCGEGQRIGIFAAAGVGKSTLLGMLC--------------A 185

Query: 98  DSEDNFAIVFAAMGV-NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALT 156
           DS  +  +V A +G    E   F +Q          V + +  ++ P +ER+     A T
Sbjct: 186 DSAAD-VMVLALIGERGREVREFLEQVLTPEARARTV-VVVATSDRPALERLKGLSTATT 243

Query: 157 TAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGR 216
            AE+      K VL++   ++ YA A RE+  A  E P    FP  ++ NL  + ER G 
Sbjct: 244 IAEYFR-DRGKKVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGN 302

Query: 217 VEGRNGSITQIPILTMPNDDFKVSAARE 244
            +   GSIT    + +  DD     A E
Sbjct: 303 SD--RGSITAFYTVLVEGDDMNEPVADE 328

Length = 440

>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit

 Score = 67.4 bits (165), Expect = 1e-12
 Identities = 25/31 (80%), Positives = 29/31 (93%)

Query: 1   MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQ 31
           MKAVVGEEAL+ +DLLYLEFL KFEKNF++Q
Sbjct: 391 MKAVVGEEALSSEDLLYLEFLDKFEKNFIAQ 421

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 466

>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific ATPase/type III secretory pathway virulence-related protein

 Score = 66.9 bits (164), Expect = 1e-12
 Identities = 53/202 (26%), Positives = 90/202 (44%), Gaps = 39/202 (19%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL------DDS 99
            +G RAID + ++ +GQ++ IF+ +G+                   GKS L        +
Sbjct: 54  PTGVRAIDGLLTVGKGQRLGIFAGSGV-------------------GKSTLLGMIARGTT 94

Query: 100 EDNFAIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLAL 155
            D    V A +G   E  R    F ++D  E G   +V + +  +++  + R+     A 
Sbjct: 95  AD--VNVIALIG---ERGREVREFIEKDLGEEGLKRSV-VVVATSDESPLLRVKAAYTAT 148

Query: 156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAG 215
             AE+   Q  K VL+++  ++ +A A RE+  A  E P  +G+P  ++  L  + ERAG
Sbjct: 149 AIAEYFRDQ-GKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAG 207

Query: 216 RVEGRNGSITQI-PILTMPNDD 236
                 GSIT    +L   +D 
Sbjct: 208 N--SDKGSITAFYTVLVEGDDL 227

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway. Length = 326

>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional

 Score = 67.2 bits (164), Expect = 1e-12
 Identities = 54/199 (27%), Positives = 95/199 (47%), Gaps = 17/199 (8%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
           S+G R ID M ++ARGQ+I IF+ AG+  + +   I R A           ++++ N   
Sbjct: 149 STGVRCIDGMLTVARGQRIGIFAGAGVGKSSLLGMIARNA-----------EEADVNVIA 197

Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           +    G   E   F + D  E G M+   + ++ ++  +  R+    +    AE+   Q 
Sbjct: 198 LIGERG--REVREFIEGDLGEEG-MKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQ- 253

Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
            K V++++  ++ +A ALREV  A  E P R G+   +++ L  + ER+G  +   G+IT
Sbjct: 254 GKTVVLMMDSVTRFARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSGASD--KGTIT 311

Query: 226 QIPILTMPNDDFKVSAARE 244
               + +  DD     A E
Sbjct: 312 AFYTVLVAGDDMNEPVADE 330

Length = 442

>gnl|CDD|233245 TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A subunit

 Score = 67.5 bits (165), Expect = 1e-12
 Identities = 54/179 (30%), Positives = 80/179 (44%), Gaps = 24/179 (13%)

Query: 82  CRQAGLVKMPG-----KSVLDDSEDNF----AIVFAAMGVN----METARFFKQ-----D 123
           C Q G   +PG     K+V+  S   +    AIV+   G       E    F +     D
Sbjct: 223 CVQGGTTAIPGAFGCGKTVISQSLSKYSNSDAIVYVGCGERGNEMAEVLMDFPELTMEVD 282

Query: 124 FEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL 183
             E   M+   L  N +N P   R  +    +T AE+       +V ++    S +AEAL
Sbjct: 283 GREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRDM-GYNVSMMADSTSRWAEAL 341

Query: 184 REVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDDF 237
           RE+S    E+P   G+P Y+   LA+ YERAGRV+      R GS++ +  ++ P  DF
Sbjct: 342 REISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPEREGSVSIVGAVSPPGGDF 400

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 591

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score = 65.7 bits (161), Expect = 2e-12
 Identities = 57/201 (28%), Positives = 89/201 (44%), Gaps = 26/201 (12%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G +AID M  I RGQ+  I                RQ G   +   ++++        +
Sbjct: 55  TGIKAIDAMIPIGRGQRELIIGD-------------RQTGKTAIAIDTIINQKGKKVYCI 101

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G    T     +  EE+G+ME   +    A+DP   + + P       E+      
Sbjct: 102 YVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDN-G 160

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRV--EGRN 221
           KH L+I  D+S  A A R++S      PGR  +PG   Y+++ L    ERA ++  E   
Sbjct: 161 KHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERAAKLNDELGG 217

Query: 222 GSITQIPIL-TMPNDDFKVSA 241
           GS+T +PI+ T   D   VSA
Sbjct: 218 GSLTALPIIETQAGD---VSA 235

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional

 Score = 66.7 bits (163), Expect = 2e-12
 Identities = 58/200 (29%), Positives = 93/200 (46%), Gaps = 20/200 (10%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
           S G R ID + +   GQ++ IF+AAG   + + A + R A               +    
Sbjct: 147 SLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTLLASLIRSA---------------EVDVT 191

Query: 106 VFAAMGV-NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQ 164
           V A +G    E   F + D  E G +    L +  ++ P++ER     +A + AE+   Q
Sbjct: 192 VLALIGERGREVREFIESDLGEEG-LRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQ 250

Query: 165 CEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSI 224
             K VL+++  ++ +A A RE+  A  E P RRG+P  ++  L  + ERAG  +   GSI
Sbjct: 251 -GKRVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMERAG--QSDKGSI 307

Query: 225 TQIPILTMPNDDFKVSAARE 244
           T +  + +  DD     A E
Sbjct: 308 TALYTVLVEGDDMTEPVADE 327

Length = 439

>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI

 Score = 64.3 bits (157), Expect = 1e-11
 Identities = 50/199 (25%), Positives = 90/199 (45%), Gaps = 32/199 (16%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA-------GLVKMPGKSVLDD 98
            +G +AID + +I +GQ++ IF+ +G+  + +   I R A        L+   G+ V D 
Sbjct: 122 ETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMIARNAKADINVIALIGERGREVRD- 180

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                               F ++D  E G   +V + +  ++ P + R+     A   A
Sbjct: 181 --------------------FIEKDLGEEGLKRSV-VVVATSDQPALMRLKAAFTATAIA 219

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+   Q  K VL+++  ++ +A A RE+  A  E P  RG+   +++ L  + ER+G  +
Sbjct: 220 EYFRDQ-GKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGNSQ 278

Query: 219 GRNGSITQIPILTMPNDDF 237
              GSIT    + +  DD 
Sbjct: 279 --KGSITGFYTVLVDGDDM 295

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 413

>gnl|CDD|235951 PRK07165, PRK07165, F0F1 ATP synthase subunit alpha; Validated

 Score = 64.6 bits (158), Expect = 1e-11
 Identities = 47/186 (25%), Positives = 90/186 (48%), Gaps = 18/186 (9%)

Query: 51  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAM 110
           AID++  I +GQ+  I                RQ G   +   ++++    N   ++ A+
Sbjct: 133 AIDLLIPIGKGQRELIIGD-------------RQTGKTHIALNTIINQKNTNVKCIYVAI 179

Query: 111 GVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVL 170
           G   E      +  +E+ +++N  +    +  P  E+ + P +A+  AE ++Y     VL
Sbjct: 180 GQKRENLSRIYETLKEHDALKNTIIIDAPSTSP-YEQYLAPYVAMAHAENISY--NDDVL 236

Query: 171 VILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPIL 230
           ++  D++ +A   RE++    +  G+  FPG M+   + + ERAG+ + R  +IT +PIL
Sbjct: 237 IVFDDLTKHANIYREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFKNRK-TITALPIL 295

Query: 231 -TMPND 235
            T+ ND
Sbjct: 296 QTVDND 301

Length = 507

>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated

 Score = 64.2 bits (157), Expect = 1e-11
 Identities = 58/209 (27%), Positives = 99/209 (47%), Gaps = 28/209 (13%)

Query: 35  RSFTPRDLIGDS--SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPG 92
            S+  R  I +   +G RAID + +   GQ++ IF++AG          C +  L+ M  
Sbjct: 123 PSYAERRPIREPLITGVRAIDGLLTCGVGQRMGIFASAG----------CGKTSLMNM-- 170

Query: 93  KSVLDDSE-DNFAIVFAAMGVNMETARF---FKQDFEENGSMENVCLFLNLANDPTIERI 148
             +++ SE D F I     G+  E  R    F +    +   E   L    ++  +++R 
Sbjct: 171 --LIEHSEADVFVI-----GLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRC 223

Query: 149 ITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLA 208
               +A T AE+   Q  K V++ +  M+ YA ALR+V+ A  E+P RRG+P  ++ +L 
Sbjct: 224 NAALVATTVAEYFRDQ-GKRVVLFIDSMTRYARALRDVALAAGELPARRGYPASVFDSLP 282

Query: 209 TIYERAGRVEGRNGSITQIPILTMPNDDF 237
            + ER G      GSIT    + + +++ 
Sbjct: 283 RLLERPGAT--LAGSITAFYTVLLESEEE 309

Length = 428

>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional

 Score = 62.5 bits (153), Expect = 5e-11
 Identities = 31/63 (49%), Positives = 41/63 (65%), Gaps = 3/63 (4%)

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSI 224
            VL++    S +AEALRE+S   EE+PG  G+P Y+ + LA  YERAGRV+   G  GS+
Sbjct: 325 DVLLMADSTSRWAEALREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEEGSV 384

Query: 225 TQI 227
           T I
Sbjct: 385 TII 387

Length = 586

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score = 61.9 bits (151), Expect = 7e-11
 Identities = 56/197 (28%), Positives = 88/197 (44%), Gaps = 26/197 (13%)

Query: 51  AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAM 110
           AID M  I RGQ+  I                RQ G   +   ++L+    N   V+ A+
Sbjct: 131 AIDSMIPIGRGQRELIIGD-------------RQTGKTAVATDTILNQKGQNVICVYVAI 177

Query: 111 GVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVL 170
           G    +        +E G+ME   +    A+ P   + + P      AE+  Y+  +H L
Sbjct: 178 GQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYR-GRHTL 236

Query: 171 VILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRVEGR--NGSIT 225
           +I  D+S  A+A R++S      PGR  +PG   Y+++ L    ERA ++  +   GS+T
Sbjct: 237 IIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERAAKLSSQLGEGSMT 293

Query: 226 QIPIL-TMPNDDFKVSA 241
            +PI+ T   D   VSA
Sbjct: 294 ALPIVETQAGD---VSA 307

Length = 485

>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family

 Score = 61.2 bits (149), Expect = 1e-10
 Identities = 49/193 (25%), Positives = 88/193 (45%), Gaps = 20/193 (10%)

Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
           S+G R+ID + ++ +GQ+I IF+ +G+  + +   I R                 +    
Sbjct: 148 STGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMIARN---------------TEADVN 192

Query: 106 VFAAMGV-NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQ 164
           V A +G    E   F + D  E G   +V + +  ++   + R+    +A   AE+   Q
Sbjct: 193 VIALIGERGREVREFIEHDLGEEGLKRSV-VVVATSDQSPLLRLKGAYVATAIAEYFRDQ 251

Query: 165 CEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSI 224
             K VL+++  ++ +A A RE+  A  E P  +G+   +++ L  + ERAG      GSI
Sbjct: 252 -GKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAG--ASGKGSI 308

Query: 225 TQIPILTMPNDDF 237
           T    + +  DD 
Sbjct: 309 TAFYTVLVEGDDM 321

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins [Energy metabolism, ATP-proton motive force interconversion]. Length = 440

>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN; Validated

 Score = 60.7 bits (147), Expect = 2e-10
 Identities = 51/198 (25%), Positives = 87/198 (43%), Gaps = 18/198 (9%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G RAID + +   GQ++ IFSA G+  + + A +C               D++ N  ++
Sbjct: 141 TGIRAIDSVATCGEGQRVGIFSAPGVGKSTLLAMLCNAP------------DADSNVLVL 188

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
               G   E   F      E  + +   + +  ++ P +ER+    +A T AEF      
Sbjct: 189 IGERG--REVREFIDFTLSEE-TRKRCVIVVATSDRPALERVRALFVATTIAEFFRDN-G 244

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQ 226
           K V+++   ++ YA A RE++ A  E      +P  +++ L  + ER G   G  GSIT 
Sbjct: 245 KRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGM--GEKGSITA 302

Query: 227 IPILTMPNDDFKVSAARE 244
              + +  DD     A E
Sbjct: 303 FYTVLVEGDDMNEPLADE 320

Length = 433

>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated

 Score = 60.8 bits (148), Expect = 2e-10
 Identities = 52/188 (27%), Positives = 83/188 (44%), Gaps = 31/188 (16%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG-------LVKMPGKSVLDDS 99
           +G R ID+   +  GQ+I IF+ +G+  + + A + R          LV   G+ V +  
Sbjct: 151 TGVRVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLARADAFDTVVIALVGERGREVREFL 210

Query: 100 EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
           ED        +  N++ A       +E+  M                R + P  A   AE
Sbjct: 211 ED-------TLADNLKKAVAVVATSDESPMM----------------RRLAPLTATAIAE 247

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   + E  VL+I+  ++ +A A REV+ A  E P  RG+P  +++ L  + ERAG    
Sbjct: 248 YFRDRGEN-VLLIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSELPRLLERAGPGAE 306

Query: 220 RNGSITQI 227
             GSIT I
Sbjct: 307 GGGSITGI 314

Length = 450

>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI

 Score = 59.2 bits (144), Expect = 6e-10
 Identities = 51/198 (25%), Positives = 85/198 (42%), Gaps = 32/198 (16%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD---SEDNF- 103
           G R ID    + RGQ++ IF+ +G+                   GKS L        +  
Sbjct: 127 GVRVIDTFLPLCRGQRLGIFAGSGV-------------------GKSTLLSMLARNTDAD 167

Query: 104 AIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
            +V A +G   E  R    F + D  E G ++   + +  +++  + R      A   AE
Sbjct: 168 VVVIALVG---ERGREVREFLEDDLGEEG-LKRSVVVVATSDESPLMRRQAAYTATAIAE 223

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   Q +  VL+++  ++ +A A RE+  A  E P  RG+   +++ L  + ERAG    
Sbjct: 224 YFRDQGKD-VLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAE 282

Query: 220 RNGSITQIPILTMPNDDF 237
             GSIT I  + +  DD 
Sbjct: 283 GKGSITGIFTVLVDGDDH 300

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively. Length = 418

>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI

 Score = 59.0 bits (144), Expect = 7e-10
 Identities = 50/190 (26%), Positives = 82/190 (43%), Gaps = 36/190 (18%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL------DDSED 101
           G RAI+ + ++ RGQ++ IF+ +G+                   GKS L          D
Sbjct: 124 GVRAINGLLTVGRGQRMGIFAGSGV-------------------GKSTLLGMMARYTEAD 164

Query: 102 NFAIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTT 157
              +V   +G   E  R    F +    E G +    +    A++  + R+     A   
Sbjct: 165 --VVVVGLIG---ERGREVKEFIEDILGEEG-LARSVVVAATADESPLMRLRAAFYATAI 218

Query: 158 AEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV 217
           AE+   Q  K VL+++  ++ +A A RE++ A  E P  +G+P  ++  L  + ERAG  
Sbjct: 219 AEYFRDQ-GKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGNG 277

Query: 218 EGRNGSITQI 227
           E   GSIT  
Sbjct: 278 EEGKGSITAF 287

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 411

>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated

 Score = 57.6 bits (139), Expect = 2e-09
 Identities = 49/189 (25%), Positives = 91/189 (48%), Gaps = 19/189 (10%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G +AID   ++ +GQ+I +FS  G   + + + I + +       KS ++        V
Sbjct: 143 TGIKAIDAFLTLGKGQRIGVFSEPGSGKSSLLSTIAKGS-------KSTIN--------V 187

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
            A +G      R + +  +E  + +   +  + A++    ++I  R A+T AE+   Q  
Sbjct: 188 IALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGH 247

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQ 226
           + VL I+  +S +  AL+EV+ AR E      +   ++ +++   ERAG  +   GSIT 
Sbjct: 248 R-VLFIMDSLSRWIAALQEVALARGETLSAHHYAASVFHHVSEFTERAGNND--KGSITA 304

Query: 227 I-PILTMPN 234
           +  IL  PN
Sbjct: 305 LYAILHYPN 313

Length = 434

>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta

 Score = 56.4 bits (136), Expect = 5e-09
 Identities = 52/203 (25%), Positives = 88/203 (43%), Gaps = 28/203 (13%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD-------S 99
           +G +AIDV+  + RG K  +F  AG+                   GK+VL          
Sbjct: 124 TGIKAIDVLVPLERGGKAGLFGGAGV-------------------GKTVLLTEMIHNMVG 164

Query: 100 EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
           +     +F  +G          ++ +E G ++N  +     N+P   R      ALT AE
Sbjct: 165 QHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAE 224

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +     ++ VL+++ ++  + +A  EVS    ++P R G+   + T LA + ER      
Sbjct: 225 YFRDDEKQDVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEERIATT-- 282

Query: 220 RNGSITQIPILTMPNDDFKVSAA 242
            +G+IT I  + +P DDF   AA
Sbjct: 283 SDGAITSIQAVYVPADDFTDPAA 305

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase. Length = 449

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score = 56.3 bits (136), Expect = 5e-09
 Identities = 48/186 (25%), Positives = 82/186 (44%), Gaps = 16/186 (8%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + ID +  I RGQ+  I                RQ G   +   ++L+    N   +
Sbjct: 148 TGLKVIDALIPIGRGQRELILGD-------------RQTGKTAIAIDTILNQKGRNVLCI 194

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G           +  E+G+M+   + +   NDP   + I P  A +  E    Q  
Sbjct: 195 YCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQ-G 253

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAG--RVEGRNGSI 224
           + VL++  D++ +A A RE+S      PGR  FPG ++   + + ER+     E   GS+
Sbjct: 254 RDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNEELGGGSL 313

Query: 225 TQIPIL 230
           T +PI+
Sbjct: 314 TALPII 319

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated

 Score = 55.4 bits (133), Expect = 1e-08
 Identities = 49/198 (24%), Positives = 92/198 (46%), Gaps = 33/198 (16%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA-------GLVKMPGKSVLDDS 99
           +G ++ID M +I  GQKI IF+ +G+  + +   I + A        LV   G+ V D  
Sbjct: 142 TGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLGMIAKNAKADINVISLVGERGREVKD-- 199

Query: 100 EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
                              F +++  E G M    + +  +++  + ++   +LA + AE
Sbjct: 200 -------------------FIRKELGEEG-MRKSVVVVATSDESHLMQLRAAKLATSIAE 239

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   Q   +VL+++  ++ +A+A R V  A +E+P   G    M + +  + ER+G+ + 
Sbjct: 240 YFRDQ-GNNVLLMMDSVTRFADARRSVDIAVKELP-IGGKTLLMESYMKKLLERSGKTQ- 296

Query: 220 RNGSITQIPILTMPNDDF 237
             GSIT I  + +  DD 
Sbjct: 297 -KGSITGIYTVLVDGDDL 313

Length = 432

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score = 55.1 bits (134), Expect = 1e-08
 Identities = 39/123 (31%), Positives = 60/123 (48%), Gaps = 13/123 (10%)

Query: 125 EENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR 184
           EE+G+ME   +    A+DP   + + P       E+      K  L++  D+S  A A R
Sbjct: 213 EEHGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNG-KDALIVYDDLSKQAVAYR 271

Query: 185 EVSAAREEVPGRRGFPG---YMYTNLATIYERAGRV--EGRNGSITQIPIL-TMPNDDFK 238
           ++S      PGR  +PG   Y+++ L    ERA ++  E   GS+T +PI+ T   D   
Sbjct: 272 QLSLLLRRPPGREAYPGDVFYLHSRL---LERAAKLSDELGGGSLTALPIIETQAGD--- 325

Query: 239 VSA 241
           VSA
Sbjct: 326 VSA 328

Length = 502

>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional

 Score = 54.9 bits (133), Expect = 1e-08
 Identities = 44/185 (23%), Positives = 83/185 (44%), Gaps = 16/185 (8%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D +  I RGQ+  I                RQ G   +   ++++  + +   V
Sbjct: 148 TGIKVVDALIPIGRGQRELIIGD-------------RQTGKTAIAIDAIINQKDSDVICV 194

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G          +   E+G++E   + +  A+DP   + + P      AE+   Q  
Sbjct: 195 YVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQ-G 253

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN--GSI 224
           +  L++  D+S +A A RE+S      PGR  +PG ++   + + ERA ++      GS+
Sbjct: 254 QDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSPELGGGSL 313

Query: 225 TQIPI 229
           T +PI
Sbjct: 314 TALPI 318

Length = 502

>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional

 Score = 54.5 bits (132), Expect = 2e-08
 Identities = 52/198 (26%), Positives = 87/198 (43%), Gaps = 30/198 (15%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI-- 105
           G + ID++  IA+G K  +F  AG+                   GK+VL   E  F I  
Sbjct: 130 GIKVIDLLCPIAKGGKTGLFGGAGV-------------------GKTVLM-MELIFNISK 169

Query: 106 ------VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
                 VFA +G           + +E+G ++   +     N+P   R+      LT AE
Sbjct: 170 QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAE 229

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +L  + ++ VL+ + ++  + +A  EVS     +P R G+   + + +A + ER    + 
Sbjct: 230 YLRDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEVAELQERIASTK- 288

Query: 220 RNGSITQIPILTMPNDDF 237
            NGSIT I  + +P DD 
Sbjct: 289 -NGSITSIQAVYVPADDL 305

Length = 461

>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional

 Score = 53.2 bits (128), Expect = 5e-08
 Identities = 47/179 (26%), Positives = 79/179 (44%), Gaps = 18/179 (10%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G R +D + ++  GQ++ IF+ AG+  + +     R                + N   +
Sbjct: 149 TGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGT------------QCDVNVIAL 196

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
               G   E   F +    E+G M    +    ++  +IER     +A   AE+   +  
Sbjct: 197 IGERG--REVREFIELILGEDG-MARSVVVCATSDRSSIERAKAAYVATAIAEYFRDR-G 252

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
             VL+++  ++ +A A RE+  A  E P RRGFP  ++  L  + ERAG   G  GSIT
Sbjct: 253 LRVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAELPRLLERAGM--GETGSIT 309

Length = 441

>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated

 Score = 52.4 bits (126), Expect = 9e-08
 Identities = 49/183 (26%), Positives = 84/183 (45%), Gaps = 26/183 (14%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFA--- 104
           G R+I+ + ++ RGQ++ +F+  G+                   GKSVL      F    
Sbjct: 155 GIRSINGLLTVGRGQRLGLFAGTGV-------------------GKSVLLGMMTRFTEAD 195

Query: 105 -IVFAAMGV-NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA 162
            IV   +G    E   F +    E G   +V +  + A+D  + R+         AE+  
Sbjct: 196 IIVVGLIGERGREVKEFIEHILGEEGLKRSVVV-ASPADDAPLMRLRAAMYCTRIAEYFR 254

Query: 163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNG 222
            +  K+VL+++  ++ +A+A RE++ A  E P  +G+P  ++  L  + ERAG  E   G
Sbjct: 255 DK-GKNVLLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEPGGG 313

Query: 223 SIT 225
           SIT
Sbjct: 314 SIT 316

Length = 451

>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional

 Score = 52.4 bits (125), Expect = 1e-07
 Identities = 46/200 (23%), Positives = 85/200 (42%), Gaps = 25/200 (12%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI- 105
           +G +A+D M  I RGQ+  I                RQ G   +   ++++    N  I 
Sbjct: 175 TGFKAVDTMIPIGRGQRELIVGD-------------RQTGKTSIAVSTIINQVRINQQIL 221

Query: 106 -------VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  ++ ++G          +     G++    +    A +P   + + P   +T  
Sbjct: 222 SKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMG 281

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+   +  +H L +  D+S  A A R++S      PGR  +PG ++   + + ERA  + 
Sbjct: 282 EYFMNR-GRHCLCVYDDLSKQAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLS 340

Query: 219 -GR-NGSITQIPIL-TMPND 235
            G+  GS+T +PI+ T+ ND
Sbjct: 341 PGKGGGSVTALPIVETLSND 360

Length = 574

>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated

 Score = 52.0 bits (125), Expect = 1e-07
 Identities = 55/190 (28%), Positives = 92/190 (48%), Gaps = 24/190 (12%)

Query: 40  RDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD 97
           R LI +  S G ++ID + +  +GQK+ IF+ +G+  + +   I +       P K    
Sbjct: 134 RGLIDEVFSVGVKSIDGLLTCGKGQKLGIFAGSGVGKSTLMGMIVKGC---LAPIK---- 186

Query: 98  DSEDNFAIVFAAMGVNMETARFFKQDFEEN--GSMENVCLFLNLANDPTIERIITPRLAL 155
                   V A +G   E  R   +  E+N  G +EN  + +  ++D  + R      A+
Sbjct: 187 --------VVALIG---ERGREIPEFIEKNLGGDLENTVIVVATSDDSPLMRKYGAFCAM 235

Query: 156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAG 215
           + AE+   Q    VL I+  ++ +A A RE+  A  E P  +G+P  + + L  + ERAG
Sbjct: 236 SVAEYFKNQ-GLDVLFIMDSVTRFAMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAG 294

Query: 216 RVEGRNGSIT 225
           + EG+ GSIT
Sbjct: 295 KEEGK-GSIT 303

Length = 434

>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit, nucleotide-binding domain

 Score = 49.9 bits (120), Expect = 4e-07
 Identities = 49/198 (24%), Positives = 83/198 (41%), Gaps = 28/198 (14%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL-DDSEDNFAI 105
           +G + ID++   A+G KI +F  AG+                   GK+VL  +  +N A 
Sbjct: 55  TGIKVIDLLAPYAKGGKIGLFGGAGV-------------------GKTVLIMELINNIAK 95

Query: 106 ------VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
                 VFA +G           + +E+G +    L     N+P   R       LT AE
Sbjct: 96  AHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAE 155

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   +  + VL+ + ++  + +A  EVSA    +P   G+   + T +  + ER      
Sbjct: 156 YFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGALQERITST-- 213

Query: 220 RNGSITQIPILTMPNDDF 237
           + GSIT +  + +P DD 
Sbjct: 214 KKGSITSVQAVYVPADDL 231

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic. Length = 274

>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated

 Score = 49.4 bits (118), Expect = 1e-06
 Identities = 55/201 (27%), Positives = 86/201 (42%), Gaps = 40/201 (19%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFA--- 104
           G RAI+ + ++ RGQ++ +F+ +G+                   GKSVL      +    
Sbjct: 162 GVRAINALLTVGRGQRMGLFAGSGV-------------------GKSVLLGMMARYTQAD 202

Query: 105 -IVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERI--ITPRLALTTAEFL 161
            IV   +G   E  R  K DF     +EN+      A    I     ++P L +  A + 
Sbjct: 203 VIVVGLIG---ERGREVK-DF-----IENILGAEGRARSVVIAAPADVSPLLRMQGAAYA 253

Query: 162 AYQCE------KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAG 215
               E      +HVL+I+  ++ YA A RE++ A  E P  +G+P  ++  L  + ERAG
Sbjct: 254 TRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAG 313

Query: 216 RVEGRNGSITQIPILTMPNDD 236
                 GSIT    +    DD
Sbjct: 314 NGISGGGSITAFYTVLTEGDD 334

Length = 455

>gnl|CDD|238554 cd01134, V_A-ATPase_A, V/A-type ATP synthase catalytic subunit A

 Score = 48.0 bits (115), Expect = 3e-06
 Identities = 21/42 (50%), Positives = 28/42 (66%), Gaps = 5/42 (11%)

Query: 244 EEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQI 280
           EE+PG  G+P Y+   LA+ YERAGRV+     GR GS+T +
Sbjct: 278 EEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIV 319

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. Length = 369

>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit

 Score = 46.6 bits (111), Expect = 8e-06
 Identities = 23/47 (48%), Positives = 29/47 (61%), Gaps = 5/47 (10%)

Query: 239 VSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQI 280
           +S   EE+PG  G+P Y+ + LA  YERAGRV     E R GS+T I
Sbjct: 338 ISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVI 384

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 578

>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated

 Score = 46.2 bits (110), Expect = 9e-06
 Identities = 53/188 (28%), Positives = 84/188 (44%), Gaps = 36/188 (19%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL------DDSED 101
           G RAI+ M ++ +GQ++ +F+ +G+                   GKSVL        + D
Sbjct: 149 GVRAINAMLTVGKGQRMGLFAGSGV-------------------GKSVLLGMMTRGTTAD 189

Query: 102 NFAIVFAAMGVNMETARFFKQDFEE----NGSMENVCLFLNLANDPTIERIITPRLALTT 157
              IV   +G   E  R  K+  EE     G   +V +       P + R+     A T 
Sbjct: 190 --VIVVGLVG---ERGREVKEFIEEILGEEGRARSVVVAAPADTSPLM-RLKGCETATTI 243

Query: 158 AEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV 217
           AE+   Q    VL+++  ++ YA+A RE++ A  E P  +G+P  ++  L  + ERAG  
Sbjct: 244 AEYFRDQGLN-VLLLMDSLTRYAQAQREIALAVGEPPATKGYPPSVFAKLPALVERAGNG 302

Query: 218 EGRNGSIT 225
               GSIT
Sbjct: 303 GPGQGSIT 310

Length = 444

>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional

 Score = 46.3 bits (111), Expect = 1e-05
 Identities = 21/40 (52%), Positives = 27/40 (67%), Gaps = 3/40 (7%)

Query: 244 EEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSITQI 280
           EE+PG  G+P Y+ + LA  YERAGRV+   G  GS+T I
Sbjct: 348 EEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEEGSVTII 387

Length = 586

>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated

 Score = 44.9 bits (106), Expect = 3e-05
 Identities = 42/190 (22%), Positives = 86/190 (45%), Gaps = 19/190 (10%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G  AI+ + +I +GQ++ + + +G+  + +   I R               ++ +  +V 
Sbjct: 142 GVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMITRY--------------TQADVVVVG 187

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
                  E   F +   +  G  ++V +    A++  + RI    L    A +  Y+ + 
Sbjct: 188 LIGERGREVKEFIEHSLQAAGMAKSV-VVAAPADESPLMRIKATELCHAIATY--YRDKG 244

Query: 168 H-VLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQ 226
           H VL+++  ++ YA A RE++ +  E P  +G+P   ++ +  + E AG   G NG++T 
Sbjct: 245 HDVLLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRLAESAGNSSG-NGTMTA 303

Query: 227 IPILTMPNDD 236
           I  +    DD
Sbjct: 304 IYTVLAEGDD 313

Length = 434

>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 28/198 (14%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL-DDSEDNFAI 105
           +G + ID++   A+G KI +F  AG+                   GK+VL  +  +N A 
Sbjct: 129 TGIKVIDLLAPYAKGGKIGLFGGAGV-------------------GKTVLIQELINNIAK 169

Query: 106 ------VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
                 VFA +G           + +E+G ++   L     N+P   R+      LT AE
Sbjct: 170 EHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAE 229

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   +  + VL+ + ++  + +A  EVSA    +P   G+   + T +  + ER      
Sbjct: 230 YFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQERI--TST 287

Query: 220 RNGSITQIPILTMPNDDF 237
           + GSIT +  + +P DD 
Sbjct: 288 KTGSITSVQAVYVPADDL 305

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 461

>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional

 Score = 44.2 bits (104), Expect = 5e-05
 Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 5/54 (9%)

Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMP 286
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P
Sbjct: 771 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPP 824

Length = 1017

>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy production and conversion]

 Score = 43.8 bits (104), Expect = 6e-05
 Identities = 49/197 (24%), Positives = 84/197 (42%), Gaps = 28/197 (14%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL-DDSEDNFAI- 105
           G + ID++   A+G KI +F  AG+                   GK+VL  +  +N A  
Sbjct: 134 GIKVIDLLAPYAKGGKIGLFGGAGV-------------------GKTVLIQELINNIAKE 174

Query: 106 -----VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF 160
                VFA +G           + +E+G ++   L     N+P   R+      LT AE+
Sbjct: 175 HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVALTGLTMAEY 234

Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              +  + VL+ + ++  + +A  EVSA    +P   G+   + T +  + ER      +
Sbjct: 235 FRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITST--K 292

Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 293 KGSITSVQAVYVPADDL 309

Length = 468

>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated

 Score = 43.4 bits (103), Expect = 8e-05
 Identities = 48/188 (25%), Positives = 81/188 (43%), Gaps = 32/188 (17%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL----DDSEDNF 103
           G RA++   +  RGQ++ IF+ +G+                   GKSVL      + D  
Sbjct: 145 GVRALNTFLTCCRGQRMGIFAGSGV-------------------GKSVLLSMLARNADAD 185

Query: 104 AIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
             V   +G   E  R    F + D    G   +V + +  +++P + R     L L  AE
Sbjct: 186 VSVIGLIG---ERGREVQEFLQDDLGPEGLARSV-VVVATSDEPALMRRQAAYLTLAIAE 241

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG 219
           +   Q  K VL ++  ++ +A A RE+  +  E P  +G+   ++  L  + ERAG    
Sbjct: 242 YFRDQ-GKDVLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAELPRLLERAGPGPI 300

Query: 220 RNGSITQI 227
             G+IT +
Sbjct: 301 GEGTITGL 308

Length = 442

>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

 Score = 43.5 bits (103), Expect = 9e-05
 Identities = 16/32 (50%), Positives = 21/32 (65%)

Query: 1   MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQE 32
           + AVVGEEAL+  D  YL+F   FE+ F+ Q 
Sbjct: 387 LVAVVGEEALSERDRKYLKFADLFEQRFIKQG 418

Length = 463

>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional

 Score = 43.3 bits (103), Expect = 1e-04
 Identities = 16/29 (55%), Positives = 21/29 (72%)

Query: 3   AVVGEEALTPDDLLYLEFLTKFEKNFVSQ 31
           A+VGEEAL+  D  YL+F   FE+ FV+Q
Sbjct: 386 AIVGEEALSERDRKYLKFADAFEREFVNQ 414

Length = 460

>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated

 Score = 41.2 bits (97), Expect = 4e-04
 Identities = 44/179 (24%), Positives = 82/179 (45%), Gaps = 20/179 (11%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G RAID + ++ +GQ++ IF+ +G+  + +   I R               ++ N   V 
Sbjct: 145 GVRAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIARNT------------SADLN---VI 189

Query: 108 AAMGV-NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           A +G    E   F ++D    G   ++ + +  ++ P + RI     A   AE+   Q  
Sbjct: 190 ALIGERGREVREFIERDLGPEGLKRSI-VVVATSDQPALMRIKGAYTATAIAEYFRDQ-G 247

Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
            +V++++  ++  A A RE+  A  E P  +G+   ++  L  + ER G     +GSIT
Sbjct: 248 LNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTGTNA--SGSIT 304

Length = 438

>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 16/29 (55%), Positives = 20/29 (68%)

Query: 3   AVVGEEALTPDDLLYLEFLTKFEKNFVSQ 31
           A+VGEEAL+  D  YL+F   FE+ FV Q
Sbjct: 384 AIVGEEALSERDRKYLKFADLFERKFVRQ 412

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 458

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	293
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	100.0
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	100.0
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	100.0
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	100.0
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	100.0
PRK04196	460	V-type ATP synthase subunit B; Provisional	100.0
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	100.0
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	100.0
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	100.0
CHL00059	485	atpA ATP synthase CF1 alpha subunit	100.0
PTZ00185	574	ATPase alpha subunit; Provisional	100.0
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	100.0
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	100.0
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	100.0
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	100.0
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	100.0
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	100.0
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	100.0
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	100.0
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	100.0
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	100.0
PRK02118	436	V-type ATP synthase subunit B; Provisional	100.0
CHL00060	494	atpB ATP synthase CF1 beta subunit	100.0
PRK04192	586	V-type ATP synthase subunit A; Provisional	100.0
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	100.0
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06936	439	type III secretion system ATPase; Provisional	100.0
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	100.0
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	100.0
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	100.0
PRK06820	440	type III secretion system ATPase; Validated	100.0
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	100.0
PRK09099	441	type III secretion system ATPase; Provisional	100.0
PRK08149	428	ATP synthase SpaL; Validated	100.0
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	100.0
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	100.0
PRK07594	433	type III secretion system ATPase SsaN; Validated	100.0
PRK05922	434	type III secretion system ATPase; Validated	100.0
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	100.0
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	100.0
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	100.0
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	100.0
KOG1351|consensus	489		100.0
PRK12678	672	transcription termination factor Rho; Provisional	100.0
PRK09376	416	rho transcription termination factor Rho; Provisio	100.0
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	100.0
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	100.0
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	100.0
PRK14698	1017	V-type ATP synthase subunit A; Provisional	100.0
PRK12608	380	transcription termination factor Rho; Provisional	100.0
PRK06315	442	type III secretion system ATPase; Provisional	100.0
KOG1350|consensus	521		100.0
TIGR00767	415	rho transcription termination factor Rho. Members	100.0
COG1155	588	NtpA Archaeal/vacuolar-type H+-ATPase subunit A [E	100.0
KOG1352|consensus	618		100.0
cd01128	249	rho_factor Transcription termination factor rho is	100.0
COG1158	422	Rho Transcription termination factor [Transcriptio	100.0
KOG1353|consensus	340		99.77
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.08
KOG1351|consensus	489		98.76
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	98.68
PRK08181	269	transposase; Validated	98.31
cd01394	218	radB RadB. The archaeal protein radB shares simila	98.26
COG1155	588	NtpA Archaeal/vacuolar-type H+-ATPase subunit A [E	98.23
smart00382	148	AAA ATPases associated with a variety of cellular	98.22
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.21
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	98.2
PRK09183	259	transposase/IS protein; Provisional	98.19
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	98.17
KOG1352|consensus	618		98.16
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.16
PRK04192	586	V-type ATP synthase subunit A; Provisional	98.11
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	98.03
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	98.01
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	98.01
PRK06526	254	transposase; Provisional	97.99
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.99
PRK09354	349	recA recombinase A; Provisional	97.99
PRK04328	249	hypothetical protein; Provisional	97.98
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.98
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.98
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	97.93
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.92
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.9
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.87
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.87
PRK06067	234	flagellar accessory protein FlaH; Validated	97.8
PRK12377	248	putative replication protein; Provisional	97.75
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.74
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	97.72
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.69
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.68
PRK09302	509	circadian clock protein KaiC; Reviewed	97.68
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.59
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.57
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.56
PRK06921	266	hypothetical protein; Provisional	97.53
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.51
PTZ00035	337	Rad51 protein; Provisional	97.51
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.48
PRK08084	235	DNA replication initiation factor; Provisional	97.45
PRK08939	306	primosomal protein DnaI; Reviewed	97.45
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.42
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	97.42
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.41
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.4
PRK09302	509	circadian clock protein KaiC; Reviewed	97.39
PRK11823	446	DNA repair protein RadA; Provisional	97.38
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.38
PRK06835	329	DNA replication protein DnaC; Validated	97.37
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.35
PRK02118	436	V-type ATP synthase subunit B; Provisional	97.34
PRK08727	233	hypothetical protein; Validated	97.33
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.32
PRK14698	1017	V-type ATP synthase subunit A; Provisional	97.31
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.31
PRK07952	244	DNA replication protein DnaC; Validated	97.29
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.26
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.21
PRK06893	229	DNA replication initiation factor; Validated	97.16
PRK08116	268	hypothetical protein; Validated	97.16
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.15
PF13173	128	AAA_14: AAA domain	97.07
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.06
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.05
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.05
PRK05642	234	DNA replication initiation factor; Validated	97.05
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.01
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.0
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	96.99
PRK05973	237	replicative DNA helicase; Provisional	96.99
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.96
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.94
PF00004	132	AAA: ATPase family associated with various cellula	96.92
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.92
PRK04196	460	V-type ATP synthase subunit B; Provisional	96.91
PF05729	166	NACHT: NACHT domain	96.88
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.84
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.82
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.82
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.8
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.8
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	96.7
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.69
PRK12422	445	chromosomal replication initiation protein; Provis	96.68
KOG1969|consensus	877		96.67
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.66
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.65
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.65
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	96.65
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.62
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.58
CHL00181	287	cbbX CbbX; Provisional	96.57
PRK14974	336	cell division protein FtsY; Provisional	96.57
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.56
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.55
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.54
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.54
PRK08118	167	topology modulation protein; Reviewed	96.53
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.53
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.49
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.49
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.47
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	96.43
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.42
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.38
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.35
PRK13342	413	recombination factor protein RarA; Reviewed	96.32
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.32
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.32
PRK10416	318	signal recognition particle-docking protein FtsY;	96.31
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.31
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.3
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.3
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.3
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.28
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.27
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.27
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.26
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	96.26
PRK07261	171	topology modulation protein; Provisional	96.26
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.26
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.24
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.24
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.23
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.23
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.22
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	96.21
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.2
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.2
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.19
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.17
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.17
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.16
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	96.16
KOG2028|consensus	554		96.15
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.15
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.15
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.14
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.14
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.13
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.13
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.13
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	96.13
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.12
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.12
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.12
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.09
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	96.08
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.08
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.06
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.06
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.06
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.06
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.06
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.05
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.05
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.05
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	96.04
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.03
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.03
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.03
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.02
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.01
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.0
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.0
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	96.0
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.0
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	96.0
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.99
TIGR00665	434	DnaB replicative DNA helicase. This model describe	95.99
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.98
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.98
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.98
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	95.97
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.97
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.97
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	95.97
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	95.96
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	95.96
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.96
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	95.95
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.95
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.95
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.94
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	95.94
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	95.94
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.93
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	95.93
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.93
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.92
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.92
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.92
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	95.92
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.9
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.9
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.9
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.89
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.89
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.88
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	95.88
cd03246	173	ABCC_Protease_Secretion This family represents the	95.87
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	95.87
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	95.86
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	95.86
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.86
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.86
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.85
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.85
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.84
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.84
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.84
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.83
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.82
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	95.82
PRK14527	191	adenylate kinase; Provisional	95.82
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	95.81
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	95.81
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	95.8
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	95.8
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.8
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	95.8
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	95.79
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	95.79
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.79
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	95.79
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.79
PRK10908	222	cell division protein FtsE; Provisional	95.78
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	95.77
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	95.77
PRK14531	183	adenylate kinase; Provisional	95.77
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.77
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	95.76
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	95.76
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	95.76
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	95.75
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	95.75
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.75
PHA00729	226	NTP-binding motif containing protein	95.74
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	95.74
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	95.74
PRK00279	215	adk adenylate kinase; Reviewed	95.74
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	95.74
PRK06217	183	hypothetical protein; Validated	95.73
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.73
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.73
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.73
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	95.72
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.72
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	95.72
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	95.71
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	95.71
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	95.71
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	95.71
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	95.71
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	95.7
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	95.7
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	95.7
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	95.69
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.68
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	95.68
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	95.68
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	95.68
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	95.68
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	95.68
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	95.67
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.67
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	95.66
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.66
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	95.66
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	95.65
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	95.65
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	95.65
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	95.65
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	95.64
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	95.64
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	95.63
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	95.62
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	95.62
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	95.62
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	95.62
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	95.62
COG0593	408	DnaA ATPase involved in DNA replication initiation	95.61
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	95.61
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	95.61
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	95.61
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	95.61
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.6
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.6
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.6
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	95.6
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	95.58
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.57
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	95.57
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	95.57
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.56
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.56
PRK14530	215	adenylate kinase; Provisional	95.56
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	95.56
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	95.55
PRK08149	428	ATP synthase SpaL; Validated	95.55
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.54
cd03234	226	ABCG_White The White subfamily represents ABC tran	95.54
PRK13341	725	recombination factor protein RarA/unknown domain f	95.54
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	95.54
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	95.54
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	95.53
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	95.53
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.53
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	95.52
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	95.52
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.51
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	95.51
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	95.51
PRK09984	262	phosphonate/organophosphate ester transporter subu	95.51
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.51
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	95.5
PRK13546	264	teichoic acids export protein ATP-binding subunit;	95.5
PRK06820	440	type III secretion system ATPase; Validated	95.5
PRK06936	439	type III secretion system ATPase; Provisional	95.49
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	95.49
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.48
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.48
KOG0731|consensus	774		95.48
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	95.47
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.47
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	95.47
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	95.46
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	95.46
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	95.46
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	95.46
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	95.46
PRK05748	448	replicative DNA helicase; Provisional	95.45
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	95.44
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.44
KOG0727|consensus	408		95.44
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	95.44
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	95.44
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	95.43
PRK13808	333	adenylate kinase; Provisional	95.43
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.42
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.42
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.42
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	95.41
PRK09087	226	hypothetical protein; Validated	95.41
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.41
PRK06620	214	hypothetical protein; Validated	95.41
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	95.4
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	95.4
PRK02496	184	adk adenylate kinase; Provisional	95.39
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.39
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.38
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	95.38
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	95.38
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	95.37
PF13479	213	AAA_24: AAA domain	95.37
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	95.35
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	95.35
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	95.35
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	95.35
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	95.35
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	95.34
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.34
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.34
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	95.33
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	95.32
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	95.32
PRK09099	441	type III secretion system ATPase; Provisional	95.31
PTZ00088	229	adenylate kinase 1; Provisional	95.3
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.3
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.29
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	95.28
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	95.28
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	95.27
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	95.27
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	95.26
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.26
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.26
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	95.24
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	95.24
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	95.23
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	95.23
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.22
KOG0733|consensus	802		95.22
cd03299	235	ABC_ModC_like Archeal protein closely related to M	95.22
PRK07594	433	type III secretion system ATPase SsaN; Validated	95.21
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.21
PRK13536	340	nodulation factor exporter subunit NodI; Provision	95.2
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	95.2
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	95.19
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	95.18
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	95.17
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.17
PRK14532	188	adenylate kinase; Provisional	95.16
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	95.16
PRK13537	306	nodulation ABC transporter NodI; Provisional	95.15
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.15
PRK03695	248	vitamin B12-transporter ATPase; Provisional	95.11
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.1
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	95.1
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	95.08
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.04
PRK00300	205	gmk guanylate kinase; Provisional	95.03
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.03
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	95.03
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.03
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.02
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	95.02
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.02
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	95.01
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	95.01
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.01
cd03270	226	ABC_UvrA_I The excision repair protein UvrA domain	94.99
PRK03839	180	putative kinase; Provisional	94.99
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.98
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	94.98
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.98
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	94.98
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	94.95
PRK08506	472	replicative DNA helicase; Provisional	94.95
PRK08233	182	hypothetical protein; Provisional	94.94
PLN03073	718	ABC transporter F family; Provisional	94.93
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	94.93
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	94.92
PRK00131	175	aroK shikimate kinase; Reviewed	94.92
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	94.9
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	94.89
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	94.89
PRK04296	190	thymidine kinase; Provisional	94.88
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.87
PRK14528	186	adenylate kinase; Provisional	94.87
PRK09825	176	idnK D-gluconate kinase; Provisional	94.85
COG4987	573	CydC ABC-type transport system involved in cytochr	94.85
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.81
PRK11147	635	ABC transporter ATPase component; Reviewed	94.8
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	94.79

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=100.00  E-value=1.6e-72  Score=522.31  Aligned_cols=248  Identities=62%  Similarity=0.910  Sum_probs=228.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..||+.+....+...+   ....+..+.||..|.+++|+|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        15 vd~lG~piD~~~~~~~~~---~~~i~~~ap~~~~R~~i~e~l--~TGIkaID~l~pig~GQR~gIfgg~GvGKt~L~~~i   89 (276)
T cd01135          15 FNGSGKPIDGGPEILAEE---YLDINGPPINPVARIYPEEMI--QTGISAIDGMNTLVRGQKIPIFSGSGLPHNELAAQI   89 (276)
T ss_pred             ECCCCCCCCCCCCCCCCc---eeeccCCCcCchhcCCccccc--ccCcEeeecccccccCCEEEeecCCCCChhHHHHHH
Confidence            356799998776554333   234567888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+.         +||+.++++|||++||||.+|+.+|++++.+.++++||++|++++|+||++|++++|+|+++||||
T Consensus        90 ~~~~~---------~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEyf  160 (276)
T cd01135          90 ARQAG---------VVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTAEYL  160 (276)
T ss_pred             HHhhh---------ccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHH
Confidence            99984         244456789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+++|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+||||++++++||||+||+|++|+||++|||
T Consensus       161 rd~~g~~VLl~~D~ltr~A~A~rEisl~~gepP~~~gyp~~vf~~~~~l~ERag~~~~~~GSITa~~~V~~~~dD~~dpi  240 (276)
T cd01135         161 AYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPI  240 (276)
T ss_pred             HhccCCeEEEEEcChhHHHHHHHHHHhccCCCCCccCcCccHHHHhhHHheecccCCCCCeeEEEEEEEEccCCCcCcch
Confidence            99779999999999999999999999999999999999999999999999999998645899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccch
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATI  263 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~  263 (293)
                      +++             +++.+.+|||||+..|-||
T Consensus       241 ~~~~~si~DG~ivLsr~la~~g~~PAID~l~S~SR  275 (276)
T cd01135         241 PDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSR  275 (276)
T ss_pred             HHHHHhhcceEEEEcHHHHhCCCCCCcCCcccccC
Confidence            997             7889999999999998775

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=100.00  E-value=2.3e-70  Score=508.24  Aligned_cols=246  Identities=20%  Similarity=0.292  Sum_probs=227.9

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+..+.+...+   +....+.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        15 ~d~~G~piD~~~~~~~~~---~~~i~~~~p~~~~R~~~~e~L--~TGIr~ID~l~pig~GQr~~If~~~G~GKTtLa~~i   89 (274)
T cd01133          15 FNVLGEPIDERGPIKTKK---TWPIHREAPEFVEQSTKTEIL--ETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIMEL   89 (274)
T ss_pred             ECCCCCccCCCCCCCccc---cccccCCCCCchhhcCcCccc--ccCceeeeccCCcccCCEEEEecCCCCChhHHHHHH
Confidence            467799998887764332   334567788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..+.            .+++|||++||||.+|+.+|++++.+.++++||++|++++|+||.+|++++|+|+++||||
T Consensus        90 ~~~i~~~------------~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyf  157 (274)
T cd01133          90 INNIAKA------------HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYF  157 (274)
T ss_pred             HHHHHhc------------CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            9998531            2568999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+++|+|||+++||+||||+|+||+++++||+|+++||||++|+.|++|||||++.  ++||||+|++|++|+||++|||
T Consensus       158 r~~~g~~Vl~~~Dsltr~a~A~reis~~~ge~p~~~gyp~~~f~~~~~l~ERag~~--~~GSiT~~~~v~~~~dD~~dpi  235 (274)
T cd01133         158 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGALQERITST--KKGSITSVQAVYVPADDLTDPA  235 (274)
T ss_pred             HHhcCCeEEEEEeChhHHHHHHHHHHHHcCCCCCCcCcCccHHHHHHHHHHHhcCC--CCcccceEEEEEecCCCCCCch
Confidence            99889999999999999999999999999999999999999999999999999983  6999999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|+             +|+.+++|||||+..|.||+++
T Consensus       236 ~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S~SR~~~  273 (274)
T cd01133         236 PATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRILD  273 (274)
T ss_pred             HHHHHHhcceEEEEcHHHHhCCCCCCcCCccchhcccC
Confidence            996             8899999999999999998764

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=100.00  E-value=1.1e-69  Score=503.05  Aligned_cols=242  Identities=22%  Similarity=0.307  Sum_probs=223.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~   80 (293)
                      .+..|++.+....+...+   +......+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus        15 ld~~G~piD~~~~~~~~~---~~~i~~~~p~~~~R~~i~e~L--~TGI~~ID~l~pigrGQr~~Ifg~~g~GKt~L~l~~   89 (274)
T cd01132          15 VDALGNPIDGKGPIETKE---RRPIESKAPGIIPRKSVNEPL--QTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDT   89 (274)
T ss_pred             EccCCCCccCCCCcCcCc---eeeccCCCCChhhcCCccccc--ccCCEEeeccCCcccCCEEEeeCCCCCCccHHHHHH
Confidence            367899999887666433   223556778899999999999  99999999999999999999999999999999 578


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |++|..              ++.+|||++||||.+|++++++++.+.++++|+++|++++|+||.+|++++|+|+++|||
T Consensus        90 i~~~~~--------------~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~  155 (274)
T cd01132          90 IINQKG--------------KKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEY  155 (274)
T ss_pred             HHHhcC--------------CCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHHHHHHHHHHH
Confidence            888763              367889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~  238 (293)
                      ||++ |+||||++|||||||+|+||+|+++||||+++||||++|+.+++|+||||+++.  ++||||+|++|++|+||++
T Consensus       156 fr~~-G~~Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp~~~f~~~~~L~ERag~~~~~~~~GSIT~i~~V~~~~dD~~  234 (274)
T cd01132         156 FMDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDVS  234 (274)
T ss_pred             HHHC-CCCEEEEEcChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHhHHHHHHhhhccCCCCCcceEEEEEEEcCCCCcC
Confidence            9998 999999999999999999999999999999999999999999999999999853  4899999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccch
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATI  263 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~  263 (293)
                      |||+|+             +|+.+++|||||+..|-||
T Consensus       235 ~pi~~~~~~i~dg~ivLsr~la~~g~yPaId~l~S~SR  272 (274)
T cd01132         235 AYIPTNVISITDGQIFLETDLFNKGIRPAINVGLSVSR  272 (274)
T ss_pred             cchHHHHHhhcCeEEEEcHHHHhCCCCCCcCCcccccC
Confidence            999996             8899999999999988765

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=100.00  E-value=1e-69  Score=531.77  Aligned_cols=260  Identities=71%  Similarity=1.006  Sum_probs=236.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   +...++.+.||..|.+++++|  +||||+||+|+|||+|||++|||++|+|||+|+.||
T Consensus        87 id~~G~piD~~~~~~~~~---~~~i~~~~~~~~~R~~i~e~l--~TGI~aID~l~~ig~GQRigIfagsGvGKs~L~~~i  161 (466)
T TIGR01040        87 FNGSGKPIDKGPPVLAED---YLDINGQPINPYARIYPEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI  161 (466)
T ss_pred             ECccccccCCCCCCCCCc---eeeccCCCCChhHcCCCCCee--ecCcEEEeccCccccCCeeeeecCCCCCHHHHHHHH
Confidence            356788888776554332   234567888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+.+.+.+...+++|+.++.+|||++||||+|+.+|++++|.+.|+++||++|++|+|+||++|++++|+|+++||||
T Consensus       162 ~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyf  241 (466)
T TIGR01040       162 CRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYL  241 (466)
T ss_pred             HHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHhhhHHHHHHH
Confidence            99997543333445667667789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+.+|+||||++|||||||+|+||||+++||||+++||||++|+.|++||||||++++++||||+||+|++|+||++|||
T Consensus       242 r~~~G~~VLl~~DslTr~A~A~REisl~~gepP~~~GYP~svfs~l~~L~ERaG~~~~~~GSITai~tV~~~~dD~~~pI  321 (466)
T TIGR01040       242 AYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPI  321 (466)
T ss_pred             HHhcCCcEEEeccChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHHHHHhhccccCCCCCcceEEEEEEECCCCCCCCcc
Confidence            95449999999999999999999999999999999999999999999999999998645899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|+             +|+.+++|||||+..|-||...
T Consensus       322 ~d~~~sIlDGhIvLsr~La~~g~yPAIDvl~SvSRl~~  359 (466)
T TIGR01040       322 PDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMK  359 (466)
T ss_pred             hhhhhhhcceEEEECHHHHhCCCCCccCCccchhhccc
Confidence            997             7899999999999999998775

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=100.00  E-value=4.9e-69  Score=529.78  Aligned_cols=250  Identities=53%  Similarity=0.822  Sum_probs=227.3

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+   ....++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|+
T Consensus        88 D~~G~plD~~~~~~~~~---~~~i~~~~~~~~~R~~~~~~l--~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L~~~ia  162 (458)
T TIGR01041        88 NGSGEPIDGGPEIVPDE---RRDINGAPINPYAREYPEEFI--QTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIA  162 (458)
T ss_pred             ccCCcccCCCCCCCccc---eeeccCCCCChhhcCCCCCcC--CCCeEEEEccCccccCCEEEeeCCCCCCHHHHHHHHH
Confidence            45688888766554322   234567888999999999999  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      +|+...         +..++.+|||++||||.+|+.+|.+++.+.++|+||++|++|+|+||++|++++|+|+++|||||
T Consensus       163 ~~~~ad---------~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr  233 (458)
T TIGR01041       163 RQATVR---------GEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAAEYLA  233 (458)
T ss_pred             Hhhccc---------CCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            998421         11235799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      +.+|+||||++||+||||+|+||||+++||||+++||||++|+.|++||||||++++++||||+||+|++|+||++|||+
T Consensus       234 ~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~GYP~svfs~l~~LlERaG~~~~~~GSITai~tV~~~gdD~~dPI~  313 (458)
T TIGR01041       234 FEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVKGKKGSITQMPILTMPGDDITHPIP  313 (458)
T ss_pred             HccCCcEEEEEcChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHhcccCCCCCcceEEEEEEEcCCCCCCCchH
Confidence            43399999999999999999999999999999999999999999999999999986568999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+             +|+.+++|||||+..|-||+..
T Consensus       314 d~~~sIlDGhivLsr~La~~G~yPAIDvl~SvSR~~~  350 (458)
T TIGR01041       314 DLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRLMK  350 (458)
T ss_pred             HhhhhhcceEEEEcHHHHhCCCCCccCCccchhhccc
Confidence            97             8899999999999999999865

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=7.1e-69  Score=529.45  Aligned_cols=250  Identities=52%  Similarity=0.820  Sum_probs=228.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+...+   ....++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        89 vD~~G~PlD~~~~i~~~~---~~~i~~~ap~~l~R~~i~epl--~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L~~~i  163 (460)
T PRK04196         89 FDGLGRPIDGGPEIIPEK---RLDINGAPINPVAREYPEEFI--QTGISAIDGLNTLVRGQKLPIFSGSGLPHNELAAQI  163 (460)
T ss_pred             ECccCCCccCCCCCCCCc---cCcccCCCCChhhcCCCCccc--cCCeEEEeccCcccCCCEEEeeCCCCCCccHHHHHH
Confidence            356688887776654332   223667888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+..         ++..++.+|||++||||.+|+.+|.+++.+.++|+||++|++|+|+||.+|++++|+|+++||||
T Consensus       164 a~~~~~---------d~~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyf  234 (460)
T PRK04196        164 ARQAKV---------LGEEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAAEYL  234 (460)
T ss_pred             HHhhhh---------ccCCCceEEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHHHHHHHHHHHHHHHH
Confidence            999842         11224579999999999999999999999999999999999999999999999999999999999


Q ss_pred             H-HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         162 A-YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       162 r-~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      | ++ |+||||++||+||||+|+||||+++||||+++||||++|+.|++||||||++++++||||+||+|++|+||++||
T Consensus       235 r~d~-G~~VLli~DslTR~A~A~REIsl~~gepP~~~gYP~~vf~~l~~LlERaG~~~~~~GSITai~~V~~~gdD~~dp  313 (460)
T PRK04196        235 AFEK-GMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIKGKKGSITQIPILTMPDDDITHP  313 (460)
T ss_pred             HHhc-CCcEEEEEcChHHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhcCCCCCeeeEEEEEEEcCCCCCCCc
Confidence            9 56 999999999999999999999999999999999999999999999999999865689999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+..|-||+..
T Consensus       314 I~d~~~sI~DG~ivLsr~La~~g~~PAIDvl~SvSR~~~  352 (460)
T PRK04196        314 IPDLTGYITEGQIVLSRELHRKGIYPPIDVLPSLSRLMK  352 (460)
T ss_pred             hhhhhhhhcceEEEEcHHHHhCCCCCccCCccchhhhcc
Confidence            9997             8899999999999999999854

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=100.00  E-value=2e-68  Score=507.91  Aligned_cols=237  Identities=27%  Similarity=0.439  Sum_probs=218.8

Q ss_pred             CCCCceeEEEecceeecccccCC-C-------ccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595          10 LTPDDLLYLEFLTKFEKNFVSQE-G-------ERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        10 ~~~~~~~~~e~~~~~~~~~~~~~-p-------~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      -.+|.++++|++++.++.++.+. |       ..|..|+++|  .||||+||+|+||+||||++|||++|+|||+|+++|
T Consensus       100 ~~~~~~~~~~~~g~~~~~~~~~~~Pv~~~~P~~~r~~~~~pL--~TGirvID~l~Pi~kGqr~~I~G~~G~GKT~L~~~I  177 (369)
T cd01134         100 TVDDVILEVEFDGKKEEITMVQKWPVRQPRPVKEKLPPNEPL--LTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVIQQSL  177 (369)
T ss_pred             eEEEEEEEEEeCCeEeccccceeeecccCCCccccCCCCCch--hccchhhhccccccCCCEEEEECCCCCChHHHHHHH
Confidence            45788899999888777777774 1       3556667788  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhh-------hCCccccEEEEeeCCCCchhhhhchHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFE-------ENGSMENVCLFLNLANDPTIERIITPRLA  154 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~-------~~g~~~~tvvv~stsd~~~~~r~~a~~~a  154 (293)
                      ++|+.               .++|||++||||.+|+.++.+++.       +.++|+||++|+||+|+|+.+|++++|+|
T Consensus       178 ak~~~---------------~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~~R~~s~yta  242 (369)
T cd01134         178 SKYSN---------------SDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTG  242 (369)
T ss_pred             HhCCC---------------CCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHHHHHHHHHHH
Confidence            99973               568999999999999999988864       57789999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeeeE
Q psy5595         155 LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPI  229 (293)
Q Consensus       155 ~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~~  229 (293)
                      +++||||||+ |+|||+++||+||||+|+||||++++|+|+++|||+++|+.|++||||||+++     +++||||++++
T Consensus       243 ~tiAEYfrd~-G~dVll~~Ds~tR~A~A~REIs~~l~E~P~~~GYP~yl~s~La~~yERAG~~~~~~~~~~~GSIT~i~~  321 (369)
T cd01134         243 ITIAEYFRDM-GYNVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIVGA  321 (369)
T ss_pred             HHHHHHHHHc-CCCEEEEEcChhHHHHHHHHHHHhcCCCCCccCcCccHHHHHHHHHHhcccccccCCCCCCccEEEEEE
Confidence            9999999998 99999999999999999999999999999999999999999999999999985     35799999999


Q ss_pred             EEecCCCcccccccc-------------ccCCCCCCCCcccccccchh
Q psy5595         230 LTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIY  264 (293)
Q Consensus       230 v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~  264 (293)
                      |++|+||++|||+++             +|+.+++|||||+..|.|+|
T Consensus       322 V~~~g~D~sdPV~~~t~~i~dg~i~Lsr~La~~g~yPAId~l~S~Sry  369 (369)
T cd01134         322 VSPPGGDFSEPVTQATLRIVQVFWGLDKKLAQRRHFPSINWLISYSKY  369 (369)
T ss_pred             EEccCCCcCcchHHhhHhhcceEEEECHHHHhCCCCCCcCCcccccCC
Confidence            999999999999986             88999999999999999987

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=100.00  E-value=5.4e-68  Score=524.48  Aligned_cols=241  Identities=21%  Similarity=0.292  Sum_probs=219.4

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQI   81 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~I   81 (293)
                      +..|++.+....+...+   ....+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+|
T Consensus       109 d~lG~PiDg~~~~~~~~---~~~i~~~~p~~~~R~~v~epl--~TGI~aID~l~pigrGQR~~Ifg~~g~GKT~Lal~~I  183 (497)
T TIGR03324       109 DPLGRPLDGGGPLASSP---RLPIERPAPPIMDRAPVTVPL--QTGLKVIDALIPIGRGQRELILGDRQTGKTAIAIDTI  183 (497)
T ss_pred             CCCCCCcCCCCCCCCCc---eeehhccCcCccccCCCCchh--hcCCEEEeccCCcccCCEEEeecCCCCCHHHHHHHHH
Confidence            45688888776554333   223456677899999999999  99999999999999999999999999999999 5699


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +||..              .+.+|||++||||.+|+.++.+++.+.++|+||++|++|+|+||.+|+++||+||++||||
T Consensus       184 ~~q~~--------------~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~ap~~a~aiAEyf  249 (497)
T TIGR03324       184 LNQKG--------------RNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHF  249 (497)
T ss_pred             HHhcC--------------CCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHHHHHHHHHHHHH
Confidence            99974              2457999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |++ |+|||+++|||||||+|+||+|+++||||+++||||++|+.|++|+||||++++  ++||||+||+|++++||++|
T Consensus       250 rd~-G~~VLlv~DdlTr~A~A~REisL~lgepPgr~gYPg~vF~~~srLlERag~~~~~~~~GSITal~~V~~~~dD~s~  328 (497)
T TIGR03324       250 MEQ-GRDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNEELGGGSLTALPIIETEAQNISA  328 (497)
T ss_pred             HhC-CCCEEEEEcChhHHHHHHHHHHhhccCCCccCcCCccHHHHhHHHHHhhhhccCCCCCcceeEEEEEEcCCCCCCC
Confidence            998 999999999999999999999999999999999999999999999999999864  58999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccch
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATI  263 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~  263 (293)
                      |||++             +|+.+++|||||+..|-||
T Consensus       329 pI~d~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSR  365 (497)
T TIGR03324       329 YIPTNLISITDGQIYLSPTLFELGVLPAVDVGKSVSR  365 (497)
T ss_pred             cchHhheeccceEEEEcHHHHhCCCCCcCCCcccccc
Confidence            99997             7778889999998777655

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=100.00  E-value=8.1e-68  Score=519.05  Aligned_cols=245  Identities=21%  Similarity=0.302  Sum_probs=226.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...   .+....+.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        84 lD~~G~PiD~~~~~~~~---~~~~i~~~ap~~~~R~~i~e~L--~TGIr~ID~l~pigkGQr~~Ifg~~G~GKt~l~~~~  158 (449)
T TIGR03305        84 FDVFGNTIDRREPPKDV---EWRSVHQAPPTLTRRSSKSEVF--ETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEM  158 (449)
T ss_pred             EccCccccCCCCCCCCc---cccchhcCCCCchhcccCCccc--ccCceeeccccccccCCEEEeecCCCCChhHHHHHH
Confidence            45678998877665433   2334667888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++++.+.            ++++|||++||||.+|+.++++++.+.++++|+++|++|+|+||++|++++|+|+++||||
T Consensus       159 ~~~~~~~------------~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyf  226 (449)
T TIGR03305       159 IHNMVGQ------------HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYF  226 (449)
T ss_pred             HHHHHhc------------CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHH
Confidence            9997421            3579999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+++|+|||+++||+||||+|+||||+++||||+++||||++|+.|++||||||+.  ++||||+||+|++|+||++|||
T Consensus       227 rd~~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~GYP~~vfs~l~~L~ERag~~--~~GSIT~i~~V~~~~dD~~dPi  304 (449)
T TIGR03305       227 RDDEKQDVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEERIATT--SDGAITSIQAVYVPADDFTDPA  304 (449)
T ss_pred             HHhcCCceEEEecChHHHHHHHHHHHHHcCCCCCccCcCchHHHHhHHHHHhhcCC--CCcCeeEEEEEEccCCCCCCch
Confidence            99449999999999999999999999999999999999999999999999999984  5899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||+.
T Consensus       305 ~d~~~silDG~IvLsr~La~~g~yPAIDvl~S~SR~~  341 (449)
T TIGR03305       305 AVHTFSHLSASLVLSRKRASEGLYPAIDPLQSTSKMA  341 (449)
T ss_pred             hHhhhhhcceEEEEcHHHHhCCCCCccCCCcchhhcC
Confidence            996             889999999999999999986

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=100.00  E-value=1.2e-67  Score=520.37  Aligned_cols=250  Identities=23%  Similarity=0.318  Sum_probs=223.1

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQI   81 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~I   81 (293)
                      +..|++.+.+.++...+   ....+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+|
T Consensus        88 d~lG~piDg~~~~~~~~---~~~i~~~ap~~~~R~~v~epl--~TGI~aID~l~pigrGQR~~I~g~~g~GKt~Lal~~I  162 (485)
T CHL00059         88 NALAKPIDGKGEISASE---SRLIESPAPGIISRRSVYEPL--QTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTI  162 (485)
T ss_pred             CCCCCeeCCCCCcCCCc---cccccCCCCCchhccCCCccc--ccCceeeccccccccCCEEEeecCCCCCHHHHHHHHH
Confidence            34688888776655432   234566778899999999999  99999999999999999999999999999999 6688


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|..              .+.+|||++||||.+|+.++++++.+.++|+||++|++++|+||.+|+++||+||++||||
T Consensus       163 ~~q~~--------------~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ap~~a~aiAEyf  228 (485)
T CHL00059        163 LNQKG--------------QNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYF  228 (485)
T ss_pred             Hhccc--------------CCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHHHHHHhhHHHHH
Confidence            88864              3678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |++ |+|||+++|||||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||+||+|++++||++|
T Consensus       229 r~~-G~~VLlv~DdlTr~A~A~REisl~l~epPgr~gYP~~vF~~~srLlERag~~~~~~~~GSITal~~V~~~~dD~s~  307 (485)
T CHL00059        229 MYR-GRHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLGEGSMTALPIVETQAGDVSA  307 (485)
T ss_pred             HHc-CCCEEEEEcChhHHHHHHHHHHHhcCCCCCcCCcCchHHHHhHHHHHhhhcccCCCCCcceEEEEEEEccCCCCCC
Confidence            998 999999999999999999999999999999999999999999999999999853  48999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhhccccccCCccccccce
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPI  282 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~  282 (293)
                      |||++             +|+.+++|||||+..          ++||+|+-+|.+.
T Consensus       308 pI~~~v~sItDGqIvLsr~La~~G~~PAIDv~~----------SvSRvg~~aq~~~  353 (485)
T CHL00059        308 YIPTNVISITDGQIFLSADLFNAGIRPAINVGI----------SVSRVGSAAQIKA  353 (485)
T ss_pred             cchHhhhhhcceEEEEcHHHHhCCCCCCcCccc----------chhcCCchhhcHH
Confidence            99997             667777888888654          4566666665543

>PTZ00185 ATPase alpha subunit; Provisional

Probab=100.00  E-value=1.3e-67  Score=520.63  Aligned_cols=261  Identities=20%  Similarity=0.247  Sum_probs=223.1

Q ss_pred             cccCCCCCCCCce---eEEEec-ceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHH
Q psy5595           3 AVVGEEALTPDDL---LYLEFL-TKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIA   78 (293)
Q Consensus         3 ~~~~~~~~~~~~~---~~~e~~-~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~   78 (293)
                      +..|++.+....+   -.++.. .....++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+
T Consensus       129 D~lG~PIDg~~~~~~~g~i~~~~~~~pIe~~ap~~~~R~~v~epL--~TGIkaID~LiPIGRGQR~lIfGd~GtGKTtLA  206 (574)
T PTZ00185        129 NPLGHEVPVGLLTRSRALLESEQTLGKVDAGAPNIVSRSPVNYNL--LTGFKAVDTMIPIGRGQRELIVGDRQTGKTSIA  206 (574)
T ss_pred             CCCCcccCCCCccccCCCCCcccccccccCCCcChhhcCCCCCcC--cCCceeeeccccccCCCEEEeecCCCCChHHHH
Confidence            5678888765321   011111 1224667888899999999999  999999999999999999999999999999995


Q ss_pred             -HHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHH
Q psy5595          79 -AQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTT  157 (293)
Q Consensus        79 -~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~ti  157 (293)
                       .+|+||+...    +..  ...++++|||++||||.+|+.+++++|.+.|+|+||++|++++|+||.+|+++||+||++
T Consensus       207 ld~IinQ~~~~----~~~--~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r~~Apy~a~ti  280 (574)
T PTZ00185        207 VSTIINQVRIN----QQI--LSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTM  280 (574)
T ss_pred             HHHHHhhhhhc----ccc--ccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHHHHHHHHHHHHH
Confidence             7999998421    000  012468999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCC
Q psy5595         158 AEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPND  235 (293)
Q Consensus       158 AEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~  235 (293)
                      ||||||+ |+|||+++|||||||+|+||||+++||||+|+||||++|+.|++|+||||++++  ++||||++|+|++++|
T Consensus       281 AEYFrd~-GkdVLiv~DDLTr~A~A~REISLllgrpPgRegYPgdVF~lhsrLlERAg~l~~~~G~GSITAlpiV~t~ad  359 (574)
T PTZ00185        281 GEYFMNR-GRHCLCVYDDLSKQAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLSPGKGGGSVTALPIVETLSN  359 (574)
T ss_pred             HHHHHHc-CCCEEEEEcCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHhcccccCCCCCcceEEEEEEEccCC
Confidence            9999998 999999999999999999999999999999999999999999999999999864  3799999999999999


Q ss_pred             Ccccccccc-------------ccCCCCCCCCcccccccchhhhccccccCCccccccce
Q psy5595         236 DFKVSAARE-------------EVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPI  282 (293)
Q Consensus       236 d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~  282 (293)
                      |++||||++             +|+.+++|||||+..          ++||+|+-+|.+.
T Consensus       360 Dis~pIptnviSItDGqIvLsr~Lf~~GiyPAIDVl~----------SvSRvg~~aq~~~  409 (574)
T PTZ00185        360 DVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIGL----------SVSRVGSSAQNVA  409 (574)
T ss_pred             CCCCcchHhhhhhcCeEEEEcHHHHhCCCCCCcCCcc----------cccccCCccCCHH
Confidence            999999998             556666777777554          5566676666554

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=2.4e-67  Score=522.77  Aligned_cols=244  Identities=21%  Similarity=0.292  Sum_probs=223.2

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQI   81 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~I   81 (293)
                      +..|++.+....+...+   +...+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+|
T Consensus       109 d~~G~pid~~~~~~~~~---~~~i~~~~p~~~~R~~~~~~l--~TGi~~ID~l~pigrGQr~~Ifg~~g~GKt~lal~~i  183 (502)
T PRK09281        109 NPLGQPIDGKGPIEATE---TRPVERKAPGVIDRKSVHEPL--QTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTI  183 (502)
T ss_pred             ccCCCCcCCCCCCCCCc---eecccCCCcCccccCCcccee--ecCCeeeecccccccCcEEEeecCCCCCchHHHHHHH
Confidence            45688888766554433   223456778899999999999  99999999999999999999999999999999 6688


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+.              ++.+|||++||||.+|+.++.+++.+.++|+||++|++|+|+||.+|+++||+|+++||||
T Consensus       184 ~~~~~--------------~dv~~V~~~IGer~~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyf  249 (502)
T PRK09281        184 INQKG--------------KDVICIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYF  249 (502)
T ss_pred             HHhcC--------------CCeEEEEEEecCChHHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHHHHHHHHHHHHH
Confidence            88874              3577899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |++ |+|||+++|||||||+|+||+|+++||||+++||||++|+.|++||||||++++  ++||||+||+|++|+||++|
T Consensus       250 rd~-G~~VLli~DdlTr~A~A~REisl~~gepPgr~gyP~~vf~~~s~LlERag~~~~~~~~GSITal~~V~~~~dD~s~  328 (502)
T PRK09281        250 MDN-GKDALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSLTALPIIETQAGDVSA  328 (502)
T ss_pred             HHc-CCCEEEEecCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhhccCCCCCccEEEEEEEECCCCCCCC
Confidence            999 999999999999999999999999999999999999999999999999999863  58999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||||+             +|+.+++|||||+..|-||...
T Consensus       329 pI~d~~~sItDGqIvLsr~La~~G~~PAIdv~~SvSRv~~  368 (502)
T PRK09281        329 YIPTNVISITDGQIFLESDLFNAGIRPAINVGISVSRVGG  368 (502)
T ss_pred             cchHhhhcccceEEEEcHHHHhCCCCCccCCcccccccCC
Confidence            99997             7888889999999999887654

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=100.00  E-value=2e-67  Score=516.52  Aligned_cols=245  Identities=21%  Similarity=0.309  Sum_probs=225.3

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   .....+.+.||..|.+++++|  .||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        89 iD~~G~pid~~~~~~~~~---~~pi~~~~p~~~~R~~~~e~l--~TGiraID~l~pig~GQr~~If~~~G~GKt~L~~~~  163 (461)
T TIGR01039        89 FNVLGEPIDEKGPIPAKE---RWPIHRKAPSFEEQSTKVEIL--ETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQEL  163 (461)
T ss_pred             EccCCcccCCCCCCCCCc---ccccccCCCChhHcCCccccc--ccCceeecccCCcccCCEEEeecCCCCChHHHHHHH
Confidence            356788888776655433   223456678899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..+.            +..++||++||||.+|+.+|++++.+.++++|+++|++|+|+||.+|++++|+|+++||||
T Consensus       164 ~~~~~~~------------~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyf  231 (461)
T TIGR01039       164 INNIAKE------------HGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAEYF  231 (461)
T ss_pred             HHHHHhc------------CCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            9998542            2459999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+++|+||||++||+||||+|+||||+++||||+++||||++|+.|++||||||+.  ++||||+||+|++|+||++|||
T Consensus       232 rd~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~--~~GSITai~tVl~~gdD~~dPi  309 (461)
T TIGR01039       232 RDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQERITST--KTGSITSVQAVYVPADDLTDPA  309 (461)
T ss_pred             HHhcCCeeEEEecchhHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCC--CCCceeEEEEEEccCCCCCCcc
Confidence            99559999999999999999999999999999999999999999999999999984  5899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||+.
T Consensus       310 ~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~  346 (461)
T TIGR01039       310 PATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLL  346 (461)
T ss_pred             HHHHHHhcceEEEECHHHHhCCCCCCcCCcccccccc
Confidence            996             889999999999999999986

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=100.00  E-value=2.5e-67  Score=517.74  Aligned_cols=245  Identities=22%  Similarity=0.302  Sum_probs=225.3

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   .....+.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        89 id~~G~plD~~~~~~~~~---~~~i~~~~p~~~~R~~~~e~l--~TGir~ID~l~pigkGQR~gIfa~~G~GKt~Ll~~~  163 (461)
T PRK12597         89 LDVLGEPLDGGPPLPAEE---RRPIHSTIPPLAEQDTSTEIL--ETGIKVIDLLCPIAKGGKTGLFGGAGVGKTVLMMEL  163 (461)
T ss_pred             EeeccccccCCCCCCCcc---eeeccCCCcChhhcCCcCcce--ecCCeeecccCccccCCEEEeecCCCCChhHHHHHH
Confidence            356688887665543222   223456688999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++++.+.            +++++||++||||.+|+.+|++++.+.++++|+++|++|+|+||++|++++|+|+++||||
T Consensus       164 ~~~~~~~------------~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyf  231 (461)
T PRK12597        164 IFNISKQ------------HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYL  231 (461)
T ss_pred             HHHHHhh------------CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999642            3689999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |+++|+||||++||+||||+|+||+|+++||||+++||||++|+.+++|+|||++.  ++||||+|+||++|+||++|||
T Consensus       232 rd~~G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~l~ERag~~--~~GSIT~i~tVl~~~dD~~dPI  309 (461)
T PRK12597        232 RDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEVAELQERIAST--KNGSITSIQAVYVPADDLTDPA  309 (461)
T ss_pred             HHhcCCceEEEeccchHHHHHHHHHHHhcCCCCCcCCcCchhHHHHHHHHHhhcCC--CCccccEEEEEEecCCCCCCcc
Confidence            99879999999999999999999999999999999999999999999999999974  5899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+.+|.||..
T Consensus       310 ~d~~~~ilDG~IvLsr~La~~g~yPAIDvl~S~SR~~  346 (461)
T PRK12597        310 AVAIFSHLDSTVVLSRAQAAKGIYPAIDPLASSSNLL  346 (461)
T ss_pred             HHHHHhhcceEEEEcHHHHhCCCCCccCCcccccccc
Confidence            996             889999999999999999975

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=100.00  E-value=4.2e-67  Score=515.30  Aligned_cols=244  Identities=21%  Similarity=0.309  Sum_probs=223.4

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+   +....+.+.||..|.+++++|  .||||+||+|+|||||||++|||++|+|||+|+.+|+
T Consensus        91 D~~G~pld~~~~~~~~~---~~pi~~~~~~~~~R~~~~~~l--~TGiraID~l~pigkGQR~gIfa~~GvGKt~Ll~~i~  165 (463)
T PRK09280         91 NVLGEPIDEKGPIGAEE---RWPIHRKAPSFEELSTKTEIL--ETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELI  165 (463)
T ss_pred             eeeccccCCCCCcCccc---eecccCCCCChHHhCCcccee--ccCCeeecccCCcccCCEEEeecCCCCChhHHHHHHH
Confidence            45678777665544322   334556788899999999999  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      ++..+.            +.++|||++||||.+|+.+|++++.+.++++||++|++|+|+||.+|++++|+|+++|||||
T Consensus       166 ~~~~~~------------~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfr  233 (463)
T PRK09280        166 NNIAKE------------HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALTGLTMAEYFR  233 (463)
T ss_pred             HHHHhc------------CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            998642            24589999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      +++|+||||++||+||||+|+|||++++||||+++||||++|+.|++||||||+.  ++||||+|++|++|+||++|||+
T Consensus       234 d~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~--~~GSITai~tVl~~gdD~~dPI~  311 (463)
T PRK09280        234 DVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITST--KKGSITSVQAVYVPADDLTDPAP  311 (463)
T ss_pred             HhcCCceEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHHHHHHhcCC--CCCceeEEEEEECcCCCCCCcch
Confidence            9339999999999999999999999999999999999999999999999999984  58999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+             +|+.+++|||||+..|.||+.
T Consensus       312 d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~  347 (463)
T PRK09280        312 ATTFAHLDATTVLSRQIAELGIYPAVDPLDSTSRIL  347 (463)
T ss_pred             HhhhhhcceEEEEcHHHHhCCCCCccCCcccccccc
Confidence            96             889999999999999999987

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=100.00  E-value=8.7e-67  Score=518.61  Aligned_cols=244  Identities=22%  Similarity=0.302  Sum_probs=222.1

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~   80 (293)
                      .+..|++.+....+...++.   ..+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus       107 ~d~~G~pld~~~~~~~~~~~---~i~~~~p~~~~R~~i~~pl--~TGi~aID~l~pigrGQr~~I~g~~g~GKt~Lal~~  181 (501)
T TIGR00962       107 VNALGQPIDGKGPIDSDEFR---PIEKIAPGVMERKSVHEPL--QTGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDT  181 (501)
T ss_pred             eCCCCCeeCCCCCcCCCCce---eeecCCCChhhcCCcCcee--ccCCceeeccCCcccCCEEEeecCCCCCccHHHHHH
Confidence            35678888877666543321   2345566899999999999  99999999999999999999999999999999 578


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |++|+.              ++.+|||++||||.+|+.++++++.+.++|+||++|++|+|+||.+|+++||+|+++|||
T Consensus       182 i~~~~~--------------~dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEy  247 (501)
T TIGR00962       182 IINQKD--------------SDVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQYLAPYTGCTMAEY  247 (501)
T ss_pred             HHhhcC--------------CCeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHHHHHHHHHHHHHH
Confidence            999874              356789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~  238 (293)
                      |||+ |+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+||||+++.  ++||||++|+|++|+||++
T Consensus       248 frd~-G~~VLlv~Ddltr~A~A~REisl~lgepP~~~gYP~~vf~~~srLlERag~~~~~~g~GSITal~~V~~~~dD~s  326 (501)
T TIGR00962       248 FRDN-GKHALIIYDDLSKHAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDEKGGGSLTALPIIETQAGDVS  326 (501)
T ss_pred             HHHc-CCCEEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHHHHHHHhhccCCCCCcceEEEEEEECCCCCCC
Confidence            9998 999999999999999999999999999999999999999999999999999853  3799999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      ||||++             +|+.+++|||||+..|-||..
T Consensus       327 ~pI~~~~~sItDGqIvLsr~La~~G~~PAIdv~~SvSRv~  366 (501)
T TIGR00962       327 AYIPTNVISITDGQIFLESDLFNSGIRPAINVGLSVSRVG  366 (501)
T ss_pred             CcchHhhhhhcceEEEEcHhHHhCCCCCccCCccchhccC
Confidence            999997             788999999999998887754

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=7.5e-67  Score=516.40  Aligned_cols=243  Identities=19%  Similarity=0.296  Sum_probs=218.3

Q ss_pred             cccCCCCCCCCceeEE-E-ecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HH
Q psy5595           3 AVVGEEALTPDDLLYL-E-FLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AA   79 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~-e-~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~   79 (293)
                      +..|++.+....+... + +......+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.
T Consensus        85 d~lG~piDg~g~i~~~~~~~~~~~~i~~~ap~~~~R~~v~epL--~TGIkaID~l~pigrGQR~~Ifg~~gtGKT~lal~  162 (507)
T PRK07165         85 DIDGNIIYPEAQNPLSKKFLPNTSSIFNLAHGLMTVKTLNEQL--YTGIIAIDLLIPIGKGQRELIIGDRQTGKTHIALN  162 (507)
T ss_pred             CCCCcccCCCCCCCcccccccccccccCCCCCchhhCCCCcee--ecCchhhhhcCCcccCCEEEeecCCCCCccHHHHH
Confidence            5578888877655431 1 122334556788999999999999  99999999999999999999999999999999 57


Q ss_pred             HHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHH
Q psy5595          80 QICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE  159 (293)
Q Consensus        80 ~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAE  159 (293)
                      +|++|+.              ++.+|||++||||.+|+.++.+++.++|+|+||++|++++| ||.+|+++||+||++||
T Consensus       163 ~I~~q~~--------------~dv~~V~~~IGer~~ev~~~~~~l~~~gal~~tvvV~atsd-~~~~r~~ap~~a~tiAE  227 (507)
T PRK07165        163 TIINQKN--------------TNVKCIYVAIGQKRENLSRIYETLKEHDALKNTIIIDAPST-SPYEQYLAPYVAMAHAE  227 (507)
T ss_pred             HHHHhcC--------------CCeEEEEEEccCChHHHHHHHHHhhhcCceeeeEEEEeCCC-CHHHHHHHHHHHHHHHH
Confidence            8999874              36789999999999999999999999999999999999985 99999999999999999


Q ss_pred             HHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccc
Q psy5595         160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       160 yfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |||++  +|||+|+|||||||+|+||+|+++||||+|+||||++|+.|++||||||+++ ++||||++|+|++++||++|
T Consensus       228 yfrd~--~dVLlv~DdLTr~A~A~REisLllgepPgregYPg~vF~~~srLlERAg~~~-g~GSITalpiV~t~~dDis~  304 (507)
T PRK07165        228 NISYN--DDVLIVFDDLTKHANIYREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFK-NRKTITALPILQTVDNDITS  304 (507)
T ss_pred             HHHhc--CceEEEEcChHHHHHHHHHHHhhccCCCCccCCCchHHHHhHHHHHhccCCC-CCCceEEEEEEECCCCCCCC
Confidence            99997  9999999999999999999999999999999999999999999999999986 47999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      ||||+             +|+.+++|||||+..|-||..
T Consensus       305 pIpdnv~sItDGqIvLsr~L~~~G~~PAIDvl~SvSRv~  343 (507)
T PRK07165        305 LISSNIISITDGQIVTSSDLFASGKLPAIDIDLSVSRTG  343 (507)
T ss_pred             cchhhhccccCeEEEEcHHHHhCCCCCCcCCccchhhcc
Confidence            99997             667777888888777766643

>COG0056 AtpA F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

Probab=100.00  E-value=1.2e-67  Score=508.96  Aligned_cols=263  Identities=22%  Similarity=0.302  Sum_probs=239.7

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++++.+.++-.-++..   .+..+..-..|...+||+  +|||++||+|+|||||||.+|+|+..+|||       
T Consensus       109 n~lG~pidgkg~i~~~~~~~---~e~~Apgv~~RksV~ePl--qTGikaIDamiPIGRGQRELIIGDRQTGKT-------  176 (504)
T COG0056         109 DALGNPIDGKGPIDATKTRP---VEKKAPGVMDRKSVNEPL--QTGIKAIDALIPIGRGQRELIIGDRQTGKT-------  176 (504)
T ss_pred             cCCCCccCCCCCccccccCc---cccccCceecccccCchh--hhhhHHHhhhcccCCCceEEEeccCcCCcc-------
Confidence            45688888888554444433   334444458899999999  999999999999999999999999555554       


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                            +|+.||+|||+..+.+||||+||++.+.+..+.+.|+++|+|+||+||++++++|+..||++||+||++|||||
T Consensus       177 ------aIAidtIiNQk~~~v~CIYVAIGQK~stva~vv~tL~e~gAmdyTiVV~AsASd~a~lqYLaPy~g~a~aE~f~  250 (504)
T COG0056         177 ------AIAIDTIINQKGSGVKCIYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFR  250 (504)
T ss_pred             ------hhhHHHHHhcccCCcEEEEEEcccchHHHHHHHHHHHHcCCccceEEEEecCCcchhhhhhhhhhhhHHHHHHH
Confidence                  55678899999899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ++ |+|||+|+||||+||.||||+|++++||||||+|||++|+.|+||+|||+++++  ++||||++|++.+.+||++.+
T Consensus       251 ~~-G~dvLIVyDDLsKhA~AYReiSLLlrRPPGREAyPGDVFYlHSrLLERAakl~~e~g~GSiTALPIIETqagDvSAy  329 (504)
T COG0056         251 DN-GKDVLIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSITALPIIETQAGDVSAY  329 (504)
T ss_pred             hc-CCeEEEEecCchHHHHHHHHHHHHhcCCCCccCCCCceeehhHHHHHHHHhhccccCCCceEeeeeEEeccCceeee
Confidence            99 999999999999999999999999999999999999999999999999999975  589999999999999999999


Q ss_pred             ccccccCCCCCCCCcccccccchhhh----ccccccCCccccccceeec
Q psy5595         241 AAREEVPGRRGFPGYMYTNLATIYER----AGRVEGRNGSITQIPILTM  285 (293)
Q Consensus       241 i~~~~la~~r~~Pai~~~~~~s~~~r----~g~~~~~~Gs~~~~~~~~~  285 (293)
                      ||.|.|+.++++ .++.++++....|    +|.++||+||.+|+++++.
T Consensus       330 IpTNVISITDGQ-Ifl~t~LFn~G~rPAInvGlSVSRvGssAQ~kamkk  377 (504)
T COG0056         330 IPTNVISITDGQ-IFLETDLFNAGIRPAINVGLSVSRVGSAAQIKAMKK  377 (504)
T ss_pred             cccceEEecCCc-EEeehhhhhcCCCccccCCceeeccchHHHHHHHHH
Confidence            999999999998 9999999988887    8899999999999988753

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=100.00  E-value=9.3e-67  Score=521.65  Aligned_cols=237  Identities=27%  Similarity=0.412  Sum_probs=217.3

Q ss_pred             CCCceeEEEecceeecccc--------cCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595          11 TPDDLLYLEFLTKFEKNFV--------SQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        11 ~~~~~~~~e~~~~~~~~~~--------~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      .+|.+..+|++++ .+..+        +.+|..|.+++++|  .||+|+||+|+||+||||++|||++|+|||+|++||+
T Consensus       167 ~~~~v~~~~~~g~-~~~~~~~~wPvr~p~p~~~R~~~~~pL--~TGiRvID~l~Pi~kGqr~~I~gg~G~GKT~l~~~la  243 (578)
T TIGR01043       167 VEDTIAVVDTDGD-EEIKMYQKWPVRIPRPYKEKLPPEVPL--ITGQRILDTFFPIAKGGTAAIPGPFGSGKTVTQHQLA  243 (578)
T ss_pred             eeeeEEEEecCCc-eeeeeeeecccccCCCchhcCCCCcch--hccchhhhccccccCCCEEEEecCCCCCHHHHHHHHH
Confidence            3678888888663 33333        44456688889999  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhh-------hCCccccEEEEeeCCCCchhhhhchHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFE-------ENGSMENVCLFLNLANDPTIERIITPRLAL  155 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~-------~~g~~~~tvvv~stsd~~~~~r~~a~~~a~  155 (293)
                      +++               ++++|||++||||.+|+.++.+++.       ...+|+||++|+||||+|+++|++++|+|+
T Consensus       244 k~~---------------~adivVyvg~GERG~E~~e~le~f~~l~dp~~g~~~m~RTvlVanTSn~p~~aR~~s~ytg~  308 (578)
T TIGR01043       244 KWS---------------DADIVVYIGCGERGNEMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGI  308 (578)
T ss_pred             hcC---------------CCCEEEEEEeccChHHHHHHHHHhHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHH
Confidence            987               3689999999999999999988884       467899999999999999999999999999


Q ss_pred             HHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeeeEE
Q psy5595         156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPIL  230 (293)
Q Consensus       156 tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~~v  230 (293)
                      |+||||||+ |+|||+++||+||||+|+||||+++||||+++|||+|+|+.|++||||||+++     +++||||+|++|
T Consensus       309 TiAEYfRD~-G~~Vllm~DS~sR~AeAlREIs~~lgE~P~~eGYP~yl~SrLa~~yERAG~~~~~~~~~r~GSIT~i~aV  387 (578)
T TIGR01043       309 TIAEYFRDM-GYDVALMADSTSRWAEAMREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVIGAV  387 (578)
T ss_pred             HHHHHHHHC-CCCEEEEecChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhhccccccCCCCCCccEeEEEEE
Confidence            999999998 99999999999999999999999999999999999999999999999999985     247999999999


Q ss_pred             EecCCCcccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         231 TMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       231 ~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ++|+||++|||+++             +||.++|||||||..|.|+|..
T Consensus       388 s~~ggD~sdPVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l~S~Sr~~~  436 (578)
T TIGR01043       388 SPPGGDFSEPVTQNTLRIVKVFWALDADLAQRRHFPAINWLQSYSLYVD  436 (578)
T ss_pred             ECCCCCCCccHHHHHHHHhCcEEEeCHHHHhcCCCCCcCcccchhhhcc
Confidence            99999999999996             8999999999999999999975

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=100.00  E-value=1.7e-66  Score=515.20  Aligned_cols=243  Identities=19%  Similarity=0.255  Sum_probs=220.9

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQI   81 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~I   81 (293)
                      +..|++.+....+...++   ...+..+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+| +.+|
T Consensus       109 d~lG~piDg~~~i~~~~~---~~i~~~ap~~~~R~~v~epl--~TGIkaID~l~pigrGQR~~I~g~~g~GKt~Lal~~i  183 (502)
T PRK13343        109 DPLGRPLDGGGPLQATAR---RPLERPAPAIIERDFVTEPL--QTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAI  183 (502)
T ss_pred             CCCCCcccCCCCCCCCce---ecccCCCcChhhcCCCCccc--ccCCceeccccccccCCEEEeeCCCCCCccHHHHHHH
Confidence            456888887766544332   23455778899999999999  99999999999999999999999999999999 6789


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|..              .+.+|||++||||.+|+.++.+++.+.++|+||++|++|+|+||.+|+++||+||++||||
T Consensus       184 ~~~~~--------------~dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyf  249 (502)
T PRK13343        184 INQKD--------------SDVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYF  249 (502)
T ss_pred             HhhcC--------------CCEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHHHHHHHHHHHHHHH
Confidence            88864              3567899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |++ |+|||+++|||||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||+||+|++++||++|
T Consensus       250 rd~-G~~VLlv~DdlTr~A~A~REisL~l~epPgr~gYP~~vf~~~srLlERAg~~~~~~~gGSITal~~V~~~~dD~s~  328 (502)
T PRK13343        250 RDQ-GQDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSPELGGGSLTALPIIETLAGELSA  328 (502)
T ss_pred             HhC-CCCEEEEecchHHHHHHHHHHHHhcCCCCCcCCcCcchHhhhHHHHHhhccCCCCCCCcceEEEEEEEcCCCCCCC
Confidence            998 999999999999999999999999999999999999999999999999999852  48999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |||++             +|+.+++|||||+..|-||..
T Consensus       329 pI~~~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSRv~  367 (502)
T PRK13343        329 YIPTNLISITDGQIYLDSDLFAAGQRPAVDVGLSVSRVG  367 (502)
T ss_pred             cchhhhhcccceEEEECHHHHhCCCCCccCCccchhccC
Confidence            99997             778888999999888877643

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=100.00  E-value=1.8e-66  Score=499.18  Aligned_cols=237  Identities=23%  Similarity=0.336  Sum_probs=214.2

Q ss_pred             cCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595           5 VGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus         5 ~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .|++.+....+-.   .........|.||..|...+++|  .||||+||+|+|||+|||+|||+++|+|||||+.||+++
T Consensus       112 ~G~plDg~~~~~~---~~~~~l~~~pp~pm~R~~I~~~l--~tGVRaIDgllT~G~GQRiGIFAgsGVGKStLLgMiar~  186 (441)
T COG1157         112 LGRPLDGGGLPDG---TERRPLDAPPPNPLKRRPIEEPL--DTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLLGMIARN  186 (441)
T ss_pred             CCCcCcCCCCCCC---cccccccCCCCCchhcccccccc--cccceeeecccccccCceeEEEecCCCcHHHHHHHHhcc
Confidence            3566665333322   22233456788999999999999  999999999999999999999999999999999999999


Q ss_pred             hcccccCCccccCCCCCceEEEEEecCccchhHHHH-HHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHH
Q psy5595          85 AGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFF-KQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAY  163 (293)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~-~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~  163 (293)
                      +               +++++|+++||||.+|+.+| .+.|.+.| ++|+|+|++|+|+||.+|+.++++|+++||||||
T Consensus       187 t---------------~aDv~ViaLIGERGREVrEFIE~~Lg~eg-l~rsViVvATSD~s~l~R~~aa~~At~IAEyFRD  250 (441)
T COG1157         187 T---------------EADVNVIALIGERGREVREFIEKDLGEEG-LKRSVVVVATSDESALMRLKAAFTATTIAEYFRD  250 (441)
T ss_pred             c---------------cCCEEEEEEeeccchhHHHHHHHhcchhh-ccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            8               47899999999998777555 55677777 8999999999999999999999999999999999


Q ss_pred             hcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccccc
Q psy5595         164 QCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAR  243 (293)
Q Consensus       164 ~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~~  243 (293)
                      | ||+||+++||+||||+|+|||+++.||||.++|||+++|+.+++|+||||+.  .+||||+|+||++++||++|||+|
T Consensus       251 q-G~~VLL~mDSlTRfA~AqREI~LA~GEpP~~kGYppSVF~~LP~LlERaG~~--~~GsITafYTVLveGDD~~dPiaD  327 (441)
T COG1157         251 Q-GKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAGNG--DKGSITAFYTVLVEGDDMNDPIAD  327 (441)
T ss_pred             C-CCeEEEEeecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHhHHHHhhcCCC--CCCcEEEEEEEEeecCCCCCchhh
Confidence            9 9999999999999999999999999999999999999999999999999995  589999999999999999999999


Q ss_pred             c-------------ccCCCCCCCCcccccccchhh
Q psy5595         244 E-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       244 ~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +             +||...||||||..+|-||-+
T Consensus       328 ~~RsILDGHIvLsR~LA~~ghyPaIdvl~SiSRvm  362 (441)
T COG1157         328 EVRSILDGHIVLSRALAEAGHYPAIDVLASISRVM  362 (441)
T ss_pred             hhhhhccceEEeeHhHHhcCCCCCcchHHHHHHHh
Confidence            6             889999999999999999854

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=3.8e-66  Score=504.93  Aligned_cols=234  Identities=36%  Similarity=0.569  Sum_probs=214.3

Q ss_pred             CCcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595           1 MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      ++++.|++.+..+.+.. +.   ....+.+.||..|.+++++|  +||||+||+|+||+||||++|||++|+|||+|+.+
T Consensus        86 V~d~~G~PiD~~~~~~~-~~---~~i~~~~~~p~~R~~~~e~l--~TGIkaID~l~pl~rGQkigIF~gaGvgk~~L~~~  159 (436)
T PRK02118         86 RFNGSGKPIDGGPELEG-EP---IEIGGPSVNPVKRIVPREMI--RTGIPMIDVFNTLVESQKIPIFSVSGEPYNALLAR  159 (436)
T ss_pred             EEccCCcccCCCCCCCc-ce---eecCCCCCChHHcCCccccc--ccCcEEeecccccccCCEEEEEeCCCCCHHHHHHH
Confidence            36788999887665532 22   34577899999999999999  99999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |++|+.               .+++||++||||.+|+.+|++++.+.++++||++|++++|+||++|++++++|+|+|||
T Consensus       160 ia~~~~---------------~~v~Vfa~iGeR~rE~~ef~~~~~~~~~l~rtvlv~~~adep~~~R~~~~~~AltiAEy  224 (436)
T PRK02118        160 IALQAE---------------ADIIILGGMGLTFDDYLFFKDTFENAGALDRTVMFIHTASDPPVECLLVPDMALAVAEK  224 (436)
T ss_pred             HHHhhC---------------CCeEEEEEeccchhHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            999984               46899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||+++|+|||+++|||||||+|+||||+++||||+++||||++|+.|++||||||+++ ++||||+||+|++|+||++||
T Consensus       225 frd~g~~~VLli~DdlTr~a~A~REIsl~~ge~P~r~GYpp~lfs~L~~l~ERag~~~-~~GSITai~~V~~p~DD~tdP  303 (436)
T PRK02118        225 FALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNRGYPGSLYSDLASRYEKAVDFE-DGGSITIIAVTTMPGDDVTHP  303 (436)
T ss_pred             HHhcCCCCEEEeccCchHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCCC-CCeeEEEEEEEEcCCCCcCcc
Confidence            9999449999999999999999999999999999999999999999999999999975 489999999999999999999


Q ss_pred             ccccccCCCCCCCCccc
Q psy5595         241 AAREEVPGRRGFPGYMY  257 (293)
Q Consensus       241 i~~~~la~~r~~Pai~~  257 (293)
                      |||+-.+..+++ .++.
T Consensus       304 i~d~~~silDGq-IvLs  319 (436)
T PRK02118        304 VPDNTGYITEGQ-FYLR  319 (436)
T ss_pred             HHHHHHHhcCcE-EEec
Confidence            999976666655 4443

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=100.00  E-value=3.5e-66  Score=510.83  Aligned_cols=244  Identities=20%  Similarity=0.282  Sum_probs=220.6

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   ....++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus       107 id~~G~piDg~~~~~~~~---~~pi~~~~p~~~~R~~i~e~L--~TGIraID~l~pigkGQR~gIfgg~GvGKs~L~~~~  181 (494)
T CHL00060        107 FNVLGEPVDNLGPVDTRT---TSPIHRSAPAFIQLDTKLSIF--ETGIKVVDLLAPYRRGGKIGLFGGAGVGKTVLIMEL  181 (494)
T ss_pred             EeecCcccCCCCCCCCCc---cccccCCCcCchhccccccee--ecCceeeeccCCcccCCEEeeecCCCCChhHHHHHH
Confidence            356788888776554333   223456788899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCcc-------ccEEEEeeCCCCchhhhhchHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSM-------ENVCLFLNLANDPTIERIITPRLA  154 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~-------~~tvvv~stsd~~~~~r~~a~~~a  154 (293)
                      +++..+.            ++++|||++||||.+|+.++++++.+.+++       +|+++|++|+|+||++|++++|+|
T Consensus       182 ~~~~~~~------------~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~~~R~~a~~~A  249 (494)
T CHL00060        182 INNIAKA------------HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTA  249 (494)
T ss_pred             HHHHHHh------------cCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCCHHHHHHHHHHH
Confidence            9984321            247999999999999999999998886654       488999999999999999999999


Q ss_pred             HHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecC
Q psy5595         155 LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPN  234 (293)
Q Consensus       155 ~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~  234 (293)
                      +++|||||+++++||||++||+||||+|+||||+++||||+++||||++|+.|++|+||||+.  ++||||+||+|++|+
T Consensus       250 ~tiAEyfrd~g~~~VLll~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~LlERaG~~--~~GSITai~tVl~~g  327 (494)
T CHL00060        250 LTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITST--KEGSITSIQAVYVPA  327 (494)
T ss_pred             HHHHHHHHHcCCCCEEEEcccchHHHHHHHHHHHhcCCCCCCCCcCCCHHHHhHHHHHhccCC--CCCCeeEEEEEECCC
Confidence            999999999833599999999999999999999999999999999999999999999999996  479999999999999


Q ss_pred             CCcccccccc-------------ccCCCCCCCCcccccccchh
Q psy5595         235 DDFKVSAARE-------------EVPGRRGFPGYMYTNLATIY  264 (293)
Q Consensus       235 ~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~  264 (293)
                      ||++|||+|+             +|+.+++|||||+..|-||+
T Consensus       328 dD~tdPI~d~~~silDGhIvLsr~La~~G~yPAIDvl~SvSR~  370 (494)
T CHL00060        328 DDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTM  370 (494)
T ss_pred             CCCCCcchHhhhhhcceEEEEcHHHHhCCCCCCcCCccchhhh
Confidence            9999999996             88999999999999999997

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=4.8e-66  Score=517.20  Aligned_cols=238  Identities=29%  Similarity=0.417  Sum_probs=219.8

Q ss_pred             CCCceeEEEe-cceeecccccCCCcc---------ccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595          11 TPDDLLYLEF-LTKFEKNFVSQEGER---------SFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus        11 ~~~~~~~~e~-~~~~~~~~~~~~p~~---------r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      .+|.+++++. +++..+..|.+ .|+         |.+|+++|  .||+|+||+|+||+||||++|+|++|+|||+|+++
T Consensus       170 v~~~i~~~~~~~G~~~~~~~~~-~wPvr~~~p~~~R~~~~~pL--~TGirvID~l~Pi~kGq~~~Ipg~~G~GKTvl~~~  246 (586)
T PRK04192        170 VDDTIAVLEDEDGEGVELTMMQ-KWPVRRPRPYKEKLPPVEPL--ITGQRVIDTFFPVAKGGTAAIPGPFGSGKTVTQHQ  246 (586)
T ss_pred             eeeEEEEEEccCCceeeecccc-ccccccCCcccccCCCCCcc--ccCchhhhcccccccCCeEEEecCCCCCHHHHHHH
Confidence            3688888886 55455666666 355         89999999  99999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhh-------CCccccEEEEeeCCCCchhhhhchHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEE-------NGSMENVCLFLNLANDPTIERIITPRL  153 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~-------~g~~~~tvvv~stsd~~~~~r~~a~~~  153 (293)
                      |++++.               .+++||++||||.+|+.++.+++.+       .++|+||++|+||||+|+++|++++|+
T Consensus       247 iak~a~---------------adivVyvg~GERg~E~~e~l~ef~~l~dp~~g~~~m~RTvlVanTSn~Pv~aR~~s~yt  311 (586)
T PRK04192        247 LAKWAD---------------ADIVIYVGCGERGNEMTEVLEEFPELIDPKTGRPLMERTVLIANTSNMPVAAREASIYT  311 (586)
T ss_pred             HHhcCC---------------CCEEEEEEcCcChHHHHHHHHHHHhhcccccccccceeEEEEEECCCCCHHHHHHHHHH
Confidence            999983               5899999999999999999988754       568999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC---CCCcceeeeeEE
Q psy5595         154 ALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSITQIPIL  230 (293)
Q Consensus       154 a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~---~~~GSiT~i~~v  230 (293)
                      |+|+||||||+ |+|||+++||+||||+|+||||+++||+|+++|||+|||+.||+||||||+++   +++||||+|++|
T Consensus       312 giTiAEYfRd~-G~~Vllm~DStSR~AeAlREIS~~l~E~P~~eGYP~yL~S~La~~yERAG~v~~~~~~~GSIT~i~aV  390 (586)
T PRK04192        312 GITIAEYYRDM-GYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEEGSVTIIGAV  390 (586)
T ss_pred             HHHHHHHHHHC-CCCEEEEecChHHHHHHHHHHHHhcCCCCccCCcCccHHHHHHHHHHhhcccccCCCCCcceEEEEEE
Confidence            99999999998 99999999999999999999999999999999999999999999999999985   247999999999


Q ss_pred             EecCCCcccccccc-------------ccCCCCCCCCcccccccchhhhc
Q psy5595         231 TMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYERA  267 (293)
Q Consensus       231 ~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r~  267 (293)
                      ++|+||++|||+++             +||.++|||||||..|.|+|...
T Consensus       391 s~pggD~sePVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l~S~Sr~~~~  440 (586)
T PRK04192        391 SPPGGDFSEPVTQNTLRIVKVFWALDAELADRRHFPAINWLTSYSLYLDQ  440 (586)
T ss_pred             ECCCCCCCcchHHHHHHHhCceEEEcHHHHhCCcCCccCCccchhhhhhc
Confidence            99999999999996             89999999999999999999763

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=100.00  E-value=3.8e-66  Score=515.92  Aligned_cols=238  Identities=27%  Similarity=0.392  Sum_probs=217.9

Q ss_pred             CCCceeEEEecceeecccccC--------CCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595          11 TPDDLLYLEFLTKFEKNFVSQ--------EGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        11 ~~~~~~~~e~~~~~~~~~~~~--------~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      .+|.++.+|..++..+..|.+        ++..|..+++||  .||+|+||+|+|||||||++|||++|+|||+|+++|+
T Consensus       170 v~~~i~~~~~~g~~~~~~m~~~wPvr~p~p~~~R~~~~~PL--~TG~RvID~lfPi~kGqr~~I~gg~G~GKT~l~~~la  247 (591)
T TIGR01042       170 VDDTVLEVEFQGVKKKFSMLQTWPVRSPRPVTEKLPANTPL--LTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLS  247 (591)
T ss_pred             eeeEEEEEeeCCceeeeccceeeecccCCChhhccCCCCcc--ccchhhhhhccchhcCCeEEEEcCCCcCHHHHHHHHH
Confidence            478899999877755555555        345566667788  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhh---------hhCCccccEEEEeeCCCCchhhhhchHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDF---------EENGSMENVCLFLNLANDPTIERIITPRL  153 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l---------~~~g~~~~tvvv~stsd~~~~~r~~a~~~  153 (293)
                      +++.               ++++||++||||.+|++++.+++         .+..+|+||++|++|+|+|+++|++++|+
T Consensus       248 k~s~---------------aDviVyvg~GERG~Em~evle~fp~l~dp~~g~~~~~m~rtvlVa~tsd~p~~~R~~s~yt  312 (591)
T TIGR01042       248 KYSN---------------SDAIVYVGCGERGNEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYT  312 (591)
T ss_pred             hccC---------------cCEEEEEEEeechHHHHHHHHHhHhhcccccccccccccceEEEEEcCCCCHHHHHHHHHH
Confidence            9873               57999999999999999888886         33577999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeee
Q psy5595         154 ALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIP  228 (293)
Q Consensus       154 a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~  228 (293)
                      |+|+||||||+ |+|||+++||+||||+|+||||+++||||+++|||+|+|+.|++||||||+++     +++||||+|+
T Consensus       313 g~tiAEYfRD~-G~~Vll~~DS~tR~AeAlREIsl~lgE~P~~eGYPayl~SrLa~l~ERAG~~~~~~~~~~~GSIT~i~  391 (591)
T TIGR01042       313 GITLAEYFRDM-GYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPEREGSVSIVG  391 (591)
T ss_pred             HHHHHHHHHhc-CCCEEEEecChHHHHHHHHHHHhccCCCCCCCCcCccHHHHHHHHHHhccCCccCCCCCCCccEEEEE
Confidence            99999999998 99999999999999999999999999999999999999999999999999985     3579999999


Q ss_pred             EEEecCCCcccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         229 ILTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|++|+||++|||+++             +||.++||||||+..|.|+|..
T Consensus       392 aVs~~ggD~sePVt~~t~~i~~~f~~Ldr~LA~~ghyPAId~l~S~Sr~~~  442 (591)
T TIGR01042       392 AVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMR  442 (591)
T ss_pred             EEECCCCCCCCchHHHHHHHhcceeeeCHHHHhCCCCCCcCCchhhhhhhh
Confidence            9999999999999986             8899999999999999999975

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=1.3e-64  Score=495.56  Aligned_cols=243  Identities=21%  Similarity=0.315  Sum_probs=221.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+..-+  .+...++.+.||..|.+++++|  +||||+||+|+||++|||++|||++|+|||+|+++|
T Consensus       103 id~~G~piDg~~~~~~~~--~~~~i~~~~p~~~~R~~~~~~l--~TGir~ID~l~~i~~Gqri~I~G~sG~GKTtLL~~I  178 (442)
T PRK08927        103 VNALGEPIDGKGPLPQGP--VPYPLRAPPPPAHSRARVGEPL--DLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLLSML  178 (442)
T ss_pred             EccCCCCccCCCCCCCCc--ccccccCCCcChHHcCCccccc--ccceEEEeeeeEEcCCCEEEEECCCCCCHHHHHHHH
Confidence            356788888776554321  1334678899999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHH-hhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQ-DFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~-~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .+++||++||||.+|+.+|.+ .+.+.+ ++|+++|++|+|+||.+|++++|+|+++|||
T Consensus       179 ~~~~~---------------~d~~v~~~iGER~rEv~ef~~~~l~~~~-l~rsvvv~atsd~~~~~r~~a~~~a~tiAEy  242 (442)
T PRK08927        179 ARNAD---------------ADVSVIGLIGERGREVQEFLQDDLGPEG-LARSVVVVATSDEPALMRRQAAYLTLAIAEY  242 (442)
T ss_pred             HhccC---------------CCEEEEEEEecCcHHHHHHHHHHhhccC-ceeEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            99873               467889999999999977765 556665 9999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ |+|||+++||+||||+|+||||+++||||+++||||++|+.|++||||||+..+++||||+||+|++|+||++||
T Consensus       243 frd~-G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gyp~~~f~~l~~l~ERaG~~~~~~GSIT~i~tVlv~gdD~~dp  321 (442)
T PRK08927        243 FRDQ-GKDVLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAELPRLLERAGPGPIGEGTITGLFTVLVDGDDHNEP  321 (442)
T ss_pred             HHHC-CCcEEEEEeCcHHHHhhhhHHHHhcCCCCcccCCCcchHHHhhHHHHHhcCCCCCCeeeeeeeeeEccCCCCCCc
Confidence            9998 999999999999999999999999999999999999999999999999999754689999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+|+             +|+.+++|||||+..|.||..
T Consensus       322 i~d~~~~i~Dg~ivLsr~La~~g~~PAIDvl~S~SR~~  359 (442)
T PRK08927        322 VADAVRGILDGHIVMERAIAERGRYPAINVLKSVSRTM  359 (442)
T ss_pred             hhhhhhccccEEEEEcHHHHhCCCCCccCCcccccccc
Confidence            9997             889999999999999999875

>PRK06936 type III secretion system ATPase; Provisional

Probab=100.00  E-value=1.9e-64  Score=494.15  Aligned_cols=241  Identities=25%  Similarity=0.331  Sum_probs=219.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+...+   ....++.+.||+.|.+++++|  .||+++||.++|+++|||++|||++|+|||+|+.+|
T Consensus       108 ~d~~G~plD~~~~~~~~~---~~pi~~~~p~p~~R~~i~~~l--~TGi~vid~l~~i~~Gq~~~I~G~sG~GKStLl~~I  182 (439)
T PRK06936        108 LDGLGQPFDGGHPPEPAA---WYPVYADAPAPMSRRLIETPL--SLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTLLASL  182 (439)
T ss_pred             ECCCCCccCCCCCCCccc---eeeccCCCCChHHccccCCCC--cCCcceeeeeEEecCCCEEEEECCCCCChHHHHHHH
Confidence            456788888776554333   223467788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHh-hhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQD-FEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~-l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .++|||++||||.+|+.+|.+. +.+.+ |+||++|++|+|+||.+|++++|+|+++|||
T Consensus       183 a~~~~---------------~dv~V~~liGERgrEv~ef~~~~l~~~~-l~rtvvv~atsd~p~~~R~~a~~~a~tiAEy  246 (439)
T PRK06936        183 IRSAE---------------VDVTVLALIGERGREVREFIESDLGEEG-LRKAVLVVATSDRPSMERAKAGFVATSIAEY  246 (439)
T ss_pred             hcCCC---------------CCEEEEEEEccCcHHHHHHHHHHhcccc-cceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            99873               4689999999999999888755 55555 9999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ |||||+++||+||||+|+|||++++||||+++||||++|+.|++||||||+.  ++||||+|+||++|+||++||
T Consensus       247 frd~-G~~Vll~~DslTR~A~A~REisl~~gepP~~~gyp~svfs~l~~l~ERaG~~--~~GSIT~i~tVl~~gdD~~dp  323 (439)
T PRK06936        247 FRDQ-GKRVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMERAGQS--DKGSITALYTVLVEGDDMTEP  323 (439)
T ss_pred             HHHc-CCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC--CCcceeeeEEEEccCCCCCcc
Confidence            9998 9999999999999999999999999999999999999999999999999984  589999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+.+|.||...
T Consensus       324 I~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~  362 (439)
T PRK06936        324 VADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMN  362 (439)
T ss_pred             hHHHhhhhcceEEEECHHHHhCCCCCccCCcccccccch
Confidence            9997             8899999999999999999753

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2e-64  Score=493.46  Aligned_cols=243  Identities=20%  Similarity=0.282  Sum_probs=220.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+..-+   .....+.+.||..|.+++++|  +||+++||.++||++|||++|||++|+|||+|+.+|
T Consensus       108 id~~G~plD~~~~~~~~~---~~~i~~~~~~p~~R~~i~e~l--~TGi~aID~ll~i~~GqrigI~G~sG~GKSTLL~~I  182 (444)
T PRK08972        108 IDGVGNPLDGLGPIYTDQ---RASRHSPPINPLSRRPITEPL--DVGVRAINAMLTVGKGQRMGLFAGSGVGKSVLLGMM  182 (444)
T ss_pred             ECCCCCCcCCCCCCCCCc---cccccCCCCChhhcCCCCCcc--cccceeecceEEEcCCCEEEEECCCCCChhHHHHHh
Confidence            356788887765543222   223556778899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .+++|+++||||.+|+.+|.+++...+.++||++|++|+|+||.+|++++|+|+++||||
T Consensus       183 ~~~~~---------------~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyf  247 (444)
T PRK08972        183 TRGTT---------------ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCETATTIAEYF  247 (444)
T ss_pred             ccCCC---------------CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            87652               468888999999999998888876677799999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++|||||||+|+||||+++||||+++||||++|+.|++||||||+..+++||||+|++|++|+||++|||
T Consensus       248 rd~-G~~VLl~~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~L~ERAg~~~~~~GSITai~tVl~~gdD~~dpI  326 (444)
T PRK08972        248 RDQ-GLNVLLLMDSLTRYAQAQREIALAVGEPPATKGYPPSVFAKLPALVERAGNGGPGQGSITAFYTVLTEGDDLQDPI  326 (444)
T ss_pred             HHc-CCCEEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHHHHHHhcCCCCCCceeeeEEEEEEeCCCCCcch
Confidence            998 9999999999999999999999999999999999999999999999999997546899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||..
T Consensus       327 ~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~  363 (444)
T PRK08972        327 ADASRAILDGHIVLSRELADSGHYPAIDIEASISRVM  363 (444)
T ss_pred             HHhhhhhcceEEEEcHHHHhCCCCCeeCCccccccCc
Confidence            997             889999999999999999875

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=100.00  E-value=1.1e-63  Score=449.98  Aligned_cols=200  Identities=33%  Similarity=0.569  Sum_probs=188.3

Q ss_pred             CCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhh
Q psy5595          47 SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEE  126 (293)
Q Consensus        47 TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~  126 (293)
                      ||||+||+|+|||||||++|||++|+|||+|+++|+++..               .+++||++||||.+|+.++++++.+
T Consensus         1 TGir~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~---------------~d~~V~~~iGer~~Ev~~~~~~~~~   65 (215)
T PF00006_consen    1 TGIRAIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQD---------------ADVVVYALIGERGREVTEFIEELKG   65 (215)
T ss_dssp             -SHHHHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHCT---------------TTEEEEEEESECHHHHHHHHHHHHH
T ss_pred             CCCceeccccccccCCEEEEEcCcccccchhhHHHHhccc---------------ccceeeeeccccchhHHHHHHHHhh
Confidence            8999999999999999999999999999999999999984               4566999999999999999999999


Q ss_pred             CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhh
Q psy5595         127 NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTN  206 (293)
Q Consensus       127 ~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~  206 (293)
                      .++++|+++|++++|+|+.+|++++++||++|||||++ |||||+++||+||||+|+||+++++||+|+++|||+++|+.
T Consensus        66 ~~~~~~t~vv~~t~~~~~~~r~~~~~~a~t~AEyfrd~-G~dVlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~~~~~~  144 (215)
T PF00006_consen   66 EGALERTVVVAATSDEPPAARYRAPYTALTIAEYFRDQ-GKDVLLIIDSLTRWAQAYREISLLLGEPPGREGYPPSLFSD  144 (215)
T ss_dssp             TTGGGGEEEEEEETTS-HHHHHHHHHHHHHHHHHHHHT-TSEEEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBTTHHHH
T ss_pred             cccccccccccccchhhHHHHhhhhccchhhhHHHhhc-CCceeehhhhhHHHHHHHHhhhcccccccccccccchhccc
Confidence            99999999999999999999999999999999999997 99999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhccc--CCCCcceeeeeEEEecCCCcccccccc-------------ccCCCCCCCCcccccccc
Q psy5595         207 LATIYERAGRV--EGRNGSITQIPILTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLAT  262 (293)
Q Consensus       207 la~l~ERag~~--~~~~GSiT~i~~v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s  262 (293)
                      +++||||||++  +.++||||++++|++|+||++|||+++             +|+.+++|||||+..|.|
T Consensus       145 l~~l~ERag~~~~~~~~GSIT~~~~v~~~~~d~~~pi~~~~~~~~dg~i~L~r~la~~~~~PAId~~~S~S  215 (215)
T PF00006_consen  145 LASLYERAGKVNSEEGGGSITAIPTVLVPGDDITDPIPDNTKSILDGHIVLSRKLAERGIFPAIDVLKSVS  215 (215)
T ss_dssp             HHHHHTTSEEBSTTTTSEEEEEEEEEEESTTBTTSHHHHHHHTTSSEEEEB-HHHHHTT-SS-BETTTEEE
T ss_pred             hhhHHHHhhccccccCCceeeeecccccccccccchHHHHHHhhcceEEEeCHHHHhCCCCCccCCccCCC
Confidence            99999999998  236999999999999999999999986             889999999999998864

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=3.8e-62  Score=479.24  Aligned_cols=243  Identities=19%  Similarity=0.276  Sum_probs=222.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+..-   .....++.+.||..|.++++++  +||+|+||.|+||++|||++|||++|+|||+|+.+|
T Consensus       114 ~d~~G~plD~~~~~~~~---~~~~i~~~~~~p~~R~~i~~~l--~TGi~aID~l~~I~~GqrigI~G~sG~GKSTLl~~I  188 (451)
T PRK05688        114 LDGAGRALDGKGPMKAE---DWVPMDGPTINPLNRHPISEPL--DVGIRSINGLLTVGRGQRLGLFAGTGVGKSVLLGMM  188 (451)
T ss_pred             EeccCceecCCCCCCcc---ceecccCCCCCHHHcccccCCc--ccceeeecceEEecCCcEEEEECCCCCCHHHHHHHH
Confidence            35678888776554322   2334567789999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++.               +.+++|+++||+|.+++.++.+.+...+.++|+++|++|+|+||.+|++++++|+++||||
T Consensus       189 ~g~~---------------~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~~a~aiAEyf  253 (451)
T PRK05688        189 TRFT---------------EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAMYCTRIAEYF  253 (451)
T ss_pred             hCCC---------------CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            8765               2467899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+||||++|||||||+|+||||+++||||+++||||++|+.|++||||||+.++++||||+||||++|+||++|||
T Consensus       254 rd~-G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYp~svfs~l~~l~ERag~~~~~~GSITai~tVl~~gdD~~dpI  332 (451)
T PRK05688        254 RDK-GKNVLLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEPGGGSITAFYTVLSEGDDQQDPI  332 (451)
T ss_pred             HHC-CCCEEEEecchhHHHHHHHHHHHhcCCCCcccCCCchHHHHhHHHHHHhcCCCCCCceeeEEEEEEecCCCCCCch
Confidence            998 9999999999999999999999999999999999999999999999999997545899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||..
T Consensus       333 ~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~  369 (451)
T PRK05688        333 ADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVM  369 (451)
T ss_pred             HHHHHhhccEEEEEcHHHHhCCCCCccCCccccCccc
Confidence            997             889999999999999998875

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=100.00  E-value=4.7e-62  Score=475.63  Aligned_cols=243  Identities=21%  Similarity=0.292  Sum_probs=223.2

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   +...++.+.||..|.++++++  .||+++||.++|+++||+++|||++|+|||+|+.+|
T Consensus        83 id~~G~pld~~~~~~~~~---~~~i~~~~~~~~~R~~~~~~~--~tGi~~id~l~~i~~Gq~~~I~G~sG~GKTtLl~~I  157 (411)
T TIGR03496        83 IDGLGRPLDGKGPLDAGE---RVPLYAPPINPLKRAPIDEPL--DVGVRAINGLLTVGRGQRMGIFAGSGVGKSTLLGMM  157 (411)
T ss_pred             ECCCCCCcCCCCCCCccc---ccccccCCCCHHhccCcceEe--eeeEEeecceEEEecCcEEEEECCCCCCHHHHHHHH
Confidence            356688887665443322   234566788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .++.|+++||||.+|+.++.+++.+.++|+||++|++|+|+||.+|++++|+|+++||||
T Consensus       158 ~~~~~---------------~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~~a~tiAEyf  222 (411)
T TIGR03496       158 ARYTE---------------ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAFYATAIAEYF  222 (411)
T ss_pred             hcCCC---------------CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            88762               457889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++||||||++++++||||+|++|++|+||++|||
T Consensus       223 r~~-G~~Vll~~Dsltr~A~A~REisl~~ge~P~~~gyp~~~f~~l~~l~ERag~~~~~~GSIT~~~tv~~~~dd~~dpi  301 (411)
T TIGR03496       223 RDQ-GKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGNGEEGKGSITAFYTVLVEGDDQQDPI  301 (411)
T ss_pred             HHC-CCCEEEEEeChHHHHHHHHHHHHhcCCCCCccCcCHHHHHHhHHHHHHhcccCCCCcceeEEEEEEccCCCCCCcc
Confidence            998 9999999999999999999999999999999999999999999999999998556899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||++
T Consensus       302 ~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S~SR~~  338 (411)
T TIGR03496       302 ADAARAILDGHIVLSRELAEQGHYPAIDILASISRVM  338 (411)
T ss_pred             hhhhcccccEEEEEchhHHhCCCCCccCCCcccccch
Confidence            997             889999999999999999976

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK06820 type III secretion system ATPase; Validated

Probab=100.00  E-value=2.6e-61  Score=472.71  Aligned_cols=240  Identities=24%  Similarity=0.339  Sum_probs=221.4

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+ ..+   ....++.+.||+.|.++++++  .||+|+||.|+|+++|||++|||++|+|||+|+.+|
T Consensus       110 ~d~~G~pld~~~~~-~~~---~~~i~~~~p~p~~R~~~~~~l--~TGi~aID~l~~i~~Gqri~I~G~sG~GKStLl~~I  183 (440)
T PRK06820        110 LDGLGAPIDGGPPL-TGQ---WRELDCPPPSPLTRQPIEQML--TTGIRAIDGILSCGEGQRIGIFAAAGVGKSTLLGML  183 (440)
T ss_pred             ECccCCccCCCCCC-Ccc---cccccCCCCChhhcCCchhhc--cCCCceecceEEecCCCEEEEECCCCCChHHHHHHH
Confidence            35678888776543 222   224567888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++.               +.+.+||++||||.+|+.++.+.+...+.+.++++|++++|+||.+|++++|+|+++||||
T Consensus       184 ~~~~---------------~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~~~a~tiAEyf  248 (440)
T PRK06820        184 CADS---------------AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGLSTATTIAEYF  248 (440)
T ss_pred             hccC---------------CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHHHHHHHHHHHH
Confidence            8876               3568899999999999999999888888999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++|+||||+.  ++||||+|+||++|+||++|||
T Consensus       249 rd~-G~~VLl~~Dsltr~A~A~REisl~~gepP~~~GYP~~vf~~l~~L~ERag~~--~~GSIT~i~tVl~~gdD~~dpI  325 (440)
T PRK06820        249 RDR-GKKVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGNS--DRGSITAFYTVLVEGDDMNEPV  325 (440)
T ss_pred             HHc-CCCEEEEccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC--CCcceeEEEEEEccCCCCCCcc
Confidence            998 9999999999999999999999999999999999999999999999999995  5899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||.+
T Consensus       326 ~d~~~~ilDg~ivLsr~La~~g~yPAIDvl~S~SR~~  362 (440)
T PRK06820        326 ADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIM  362 (440)
T ss_pred             hhhhccccceEEEECHHHHhCCCCCccCCcccccccc
Confidence            997             889999999999999999976

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=100.00  E-value=3.5e-61  Score=469.97  Aligned_cols=243  Identities=22%  Similarity=0.321  Sum_probs=217.2

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+  .+..-++.+.||..|.++++++  .||+++||.++|+++|||++|||++|+|||+|+.+|+
T Consensus        86 D~lG~plD~~~~~~~~~--~~~~i~~~~p~~~~R~~i~~~l--~tGi~aiD~~~~i~~Gq~i~I~G~sG~GKTtLl~~I~  161 (418)
T TIGR03498        86 NALGEPIDGKGPLPQGE--RRYPLRASPPPAMSRARVGEPL--DTGVRVIDTFLPLCRGQRLGIFAGSGVGKSTLLSMLA  161 (418)
T ss_pred             CCCCCccCCCCCCCCCc--ceechhhcCCChhhccCccccc--CCccEEEeeeccccCCcEEEEECCCCCChHHHHHHHh
Confidence            45688877665442221  1233456778899999999999  9999999999999999999999999999999999998


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      ++..               .+..+++++|||.+|+.++.+.....+.|+||++|++|+|+||.+|++++|+|+++|||||
T Consensus       162 ~~~~---------------~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~a~~iAEyfr  226 (418)
T TIGR03498       162 RNTD---------------ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYTATAIAEYFR  226 (418)
T ss_pred             CCCC---------------CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            7762               4577899999999999988775444445999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      ++ |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|+||||+..+++||||+||||++|+||++|||+
T Consensus       227 d~-G~~Vll~~DslTr~A~A~REisl~~gepP~~~gyp~~vf~~l~~L~ERag~~~~~~GSIT~~~tVl~~gdd~~dpi~  305 (418)
T TIGR03498       227 DQ-GKDVLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAEGKGSITGIFTVLVDGDDHNEPVA  305 (418)
T ss_pred             Hc-CCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCchhhhhhhHHHHHhccCCCCCcceeeeEEEeccCCCCCCcch
Confidence            98 99999999999999999999999999999999999999999999999999864468999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+             +|+.+++|||||+..|.||.+
T Consensus       306 d~~~si~DG~ivLsr~la~~g~~PAIDv~~S~SR~~  341 (418)
T TIGR03498       306 DAVRGILDGHIVLDRAIAERGRYPAINVLASVSRLA  341 (418)
T ss_pred             hhhheeeeeEEEECHHHHhCCCCCccCCcccccccc
Confidence            97             889999999999999999875

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK09099 type III secretion system ATPase; Provisional

Probab=100.00  E-value=4.6e-61  Score=471.41  Aligned_cols=240  Identities=23%  Similarity=0.295  Sum_probs=220.9

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+   .....+.+.||..|.+++++|  .||+++||.++|+++||+++|||++|+|||+|+.+|+
T Consensus       110 d~~G~piD~~~~~~~~~---~~~i~~~~p~p~~R~~i~e~l--~TGi~~ID~l~~i~~Gq~~~I~G~sG~GKTtLl~~ia  184 (441)
T PRK09099        110 DGLGEPIDGGGPLDCDE---LVPVIAAPPDPMSRRMVEAPL--PTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFA  184 (441)
T ss_pred             cccCCccCCCCCCcccc---ccccccCCCChhhcCCccccc--CCCceeccceeeecCCCEEEEECCCCCCHHHHHHHHh
Confidence            45688887765544322   223466888999999999999  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      ++..               .+.+||++||||.+|+++|.+.+.+.+.++|+++|++|+|+||.+|++++|+|+++|||||
T Consensus       185 ~~~~---------------~d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfr  249 (441)
T PRK09099        185 RGTQ---------------CDVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFR  249 (441)
T ss_pred             CCCC---------------CCeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            8763               3578999999999999999999888888999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      ++ |||||+++||+||||+|+|||++++||||+++||||++|+.|++||||||..  ++||||+||||++++||++|||+
T Consensus       250 d~-G~~VLl~~DslTr~A~A~REisl~~gepP~~~gyP~~vf~~l~~l~ERag~~--~~GSIT~i~tVl~~~dd~~dpI~  326 (441)
T PRK09099        250 DR-GLRVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAELPRLLERAGMG--ETGSITALYTVLAEDESGSDPIA  326 (441)
T ss_pred             Hc-CCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHhHHHHHhhcCC--CCcchheeEEEEecCCCcCCcch
Confidence            98 9999999999999999999999999999999999999999999999999963  59999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+             +|+.+++|||||+..|.||++
T Consensus       327 d~~~~i~DG~ivLsr~La~~g~yPAIDvl~S~SR~~  362 (441)
T PRK09099        327 EEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVM  362 (441)
T ss_pred             hhhheecceEEEEcHHHHhCCCCCccCCccccCccc
Confidence            96             889999999999999999976

>PRK08149 ATP synthase SpaL; Validated

Probab=100.00  E-value=1.6e-60  Score=465.90  Aligned_cols=245  Identities=21%  Similarity=0.291  Sum_probs=220.5

Q ss_pred             CcccCCCCCCCC-ceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595           2 KAVVGEEALTPD-DLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~-~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      .+..|++.+... .....+-..+...+..+.||..|.++++++  .||+++||.++|+++|||++|||++|+|||||+.+
T Consensus        93 ~d~~G~piD~~~~~~~~~~~~~~~~i~~~~~~~~~R~~i~e~l--~tGi~aid~ll~i~~Gq~i~I~G~sG~GKTTLl~~  170 (428)
T PRK08149         93 LDPTGKIVERFDAPPTVGPISEERVIDVAPPSYAERRPIREPL--ITGVRAIDGLLTCGVGQRMGIFASAGCGKTSLMNM  170 (428)
T ss_pred             eCCCCCCcCCCCCCcccccccceeehhccCCcchhccCccccc--cCCcEEEeeeeeEecCCEEEEECCCCCChhHHHHH
Confidence            356688777654 111110012234556788899999999999  99999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+++..               .+.+|+++||+|.+++.++.+++.+.+.++|+++|++++|+||.+|++++|+|+++|||
T Consensus       171 i~~~~~---------------~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~~a~tiAE~  235 (428)
T PRK08149        171 LIEHSE---------------ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAALVATTVAEY  235 (428)
T ss_pred             HhcCCC---------------CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHHHHHHHHHH
Confidence            998763               45778999999999999999999888889999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ ||||||++|||||||+|+|||++++||||+++||||++|+.|++||||||+.+  +||||+|++|++|+||++||
T Consensus       236 fr~~-G~~Vll~~DslTr~A~A~rEi~l~~ge~P~~~Gyp~~vfs~l~~l~ERag~~~--~GSIT~~~tVl~~~dD~~dp  312 (428)
T PRK08149        236 FRDQ-GKRVVLFIDSMTRYARALRDVALAAGELPARRGYPASVFDSLPRLLERPGATL--AGSITAFYTVLLESEEEPDP  312 (428)
T ss_pred             HHHc-CCCEEEEccchHHHHHHHHHhHhhcCCCCcccccCccHHHHHHHHHHhccCCC--CCCceEEEEEEecCCCCCCC
Confidence            9998 99999999999999999999999999999999999999999999999999974  79999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+..|.||.+.
T Consensus       313 i~d~~~~ilDg~ivLsr~La~~g~yPAIDvl~S~SR~~~  351 (428)
T PRK08149        313 IGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRVFG  351 (428)
T ss_pred             chhhhheeccEEEEEcHHHHhCCCCCcccCccccccchh
Confidence            9996             8899999999999999998753

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=8.9e-61  Score=468.93  Aligned_cols=243  Identities=20%  Similarity=0.236  Sum_probs=223.3

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+   +....+.+.||..|.++++++  +||||+||+|+|+++||+++|||++|+|||+|+.+|+
T Consensus       122 d~~G~piDg~~~~~~~~---~~~i~~~~~~p~~R~~i~e~l--~TGiraID~ll~I~~Gqri~I~G~sG~GKTTLL~~Ia  196 (455)
T PRK07960        122 DGSGKPLDGLPAPDTGE---TGALITPPFNPLQRTPIEHVL--DTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMA  196 (455)
T ss_pred             CCCccccCCCCCCCCCc---cccccCCCcChHHhcccccch--hccceeeeecccccCCcEEEEECCCCCCccHHHHHHh
Confidence            45688888765544322   334667889999999999999  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      ++.               +.+.+|+++||+|.+++.++++++.+.+.++++++|++++|+||.+|++++++|+++|||||
T Consensus       197 ~~~---------------~~d~iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~~~~~~a~tiAEyfr  261 (455)
T PRK07960        197 RYT---------------QADVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFR  261 (455)
T ss_pred             CCC---------------CCCEEEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            876               24678889999999999999988888888999999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      ++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++||||||+..+++||||+|++|++|+||++|||+
T Consensus       262 d~-G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gypp~~f~~l~~l~ERag~~~~~~GSIT~i~tVlv~~dD~~dpi~  340 (455)
T PRK07960        262 DR-GQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGISGGGSITAFYTVLTEGDDQQDPIA  340 (455)
T ss_pred             Hc-CCCeEEEecchhHHHHHHHHHHHhcCCCCccccCCcchhhhhhHHHHHHhcCCCCCeeeeeEEEEEEcCCCCCcchH
Confidence            98 99999999999999999999999999999999999999999999999999975468999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+             +|+.+++|||||+..|.||.+.
T Consensus       341 d~~~~i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~  377 (455)
T PRK07960        341 DSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMT  377 (455)
T ss_pred             HHhhhhcceEEEECHHHHhCCCCCccCcCcccCcCcc
Confidence            97             8899999999999999999764

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=100.00  E-value=1.8e-60  Score=464.74  Aligned_cols=240  Identities=23%  Similarity=0.344  Sum_probs=216.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...   .....++.+.||..|.++++++  .||+|+||.++|+++|||++|||++|+|||+|+.+|
T Consensus        83 id~~G~plD~~~~~~~~---~~~~i~~~~p~~~~R~~~~~~~--~tGi~~iD~l~~i~~Gqri~I~G~sG~GKTtLl~~i  157 (413)
T TIGR03497        83 LDGLGRPLDGEGPIIGE---EPYPLDNPPPNPLKRPRIRDPL--ETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMI  157 (413)
T ss_pred             EcCCCCcccCCCCCCCC---ccccccCCCcChHHccchhhhc--cccceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHH
Confidence            46778988876554322   2224556788899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHh-hhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQD-FEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~-l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .+..|+++||||.+|+.++.++ +.+.+ ++|+++|++|+|+||.+|++++++|+++|||
T Consensus       158 ~~~~~---------------~~~gvi~~~Ger~~ev~e~~~~~l~~~~-~~~~v~v~~tsd~~~~~r~~~~~~a~tiAEy  221 (413)
T TIGR03497       158 ARNAK---------------ADINVIALIGERGREVRDFIEKDLGEEG-LKRSVVVVATSDQPALMRLKAAFTATAIAEY  221 (413)
T ss_pred             hCCCC---------------CCeEEEEEEccchHHHHHHHHHHhcccc-cceEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            98763               4577899999999888766655 55555 8999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ |+||||++|||||||+|+||||+++||||+++||||++|+.|++|+||||+  +++||||+||+|++|+||++||
T Consensus       222 fr~~-G~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~gyp~~~f~~l~~l~ERag~--~~~GSIT~~~tVl~~gdD~~dp  298 (413)
T TIGR03497       222 FRDQ-GKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGN--SQKGSITGFYTVLVDGDDMNEP  298 (413)
T ss_pred             HHHC-CCCEEEEEcCcHHHHHHHHHHHHhcCCCCCCCCcCchHHHHhHHHHHHhcC--CCCcceeEEEEEEccCCCCCCc
Confidence            9998 999999999999999999999999999999999999999999999999999  3699999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+|+             +++.+++|||||+..|.||.+
T Consensus       299 i~~~~~si~dg~ivLsr~la~~g~~PAId~~~S~SR~~  336 (413)
T TIGR03497       299 IADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSRVM  336 (413)
T ss_pred             chhhccccccEEEEECHHHHhCCCCCccCCccccccCc
Confidence            9997             889999999999999999975

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=100.00  E-value=2.3e-60  Score=451.35  Aligned_cols=241  Identities=21%  Similarity=0.310  Sum_probs=222.7

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..||+.+....+...   .+...++.+.||..|.++++++  .||+++||.++|+++|||++|||++|+|||+|+.+|
T Consensus        15 ~d~~G~pid~~~~~~~~---~~~~i~~~~~~~~~R~~~~~~l--~tGi~aiD~l~~i~~Gqri~I~G~sG~GKTtLl~~I   89 (326)
T cd01136          15 LDAFGEPLDGKGPLGKE---VRYPLLRTPPNPLKRRPIDEVL--PTGVRAIDGLLTVGKGQRLGIFAGSGVGKSTLLGMI   89 (326)
T ss_pred             ECCCCcccCCCCCCCCC---ccccccCCCcCHHHhccceeEc--CCCcEEEeeeeEEcCCcEEEEECCCCCChHHHHHHH
Confidence            46779999877664332   2334567888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .+.+++++||||.+++.++.+.....+.++|+++|++++|+||.+|++++++|+++||||
T Consensus        90 a~~~~---------------~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~~a~~~AEyf  154 (326)
T cd01136          90 ARGTT---------------ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYF  154 (326)
T ss_pred             hCCCC---------------CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            98763               457899999999999999998888888899999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |||||+++||+||||+|+||+++++||||+++|||+++|+.|++||||||+.+  +||||+|++|++|+||++|||
T Consensus       155 r~~-g~~Vll~~Dsltr~a~A~rei~~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~--~GSIT~i~tv~~~gdd~~dpi  231 (326)
T cd01136         155 RDQ-GKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSD--KGSITAFYTVLVEGDDLNEPI  231 (326)
T ss_pred             HHc-CCCeEEEeccchHHHHHHHHHHHhcCCCCCcCCcChHHHHHhHHHHHHhcCCC--CCCeeeeeeeeecCCCCCcch
Confidence            998 99999999999999999999999999999999999999999999999999974  699999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +++             +++.+++|||+|+..|.||.+
T Consensus       232 ~~~~~~~~dg~ivL~r~la~~g~~PAid~~~S~SR~~  268 (326)
T cd01136         232 ADAVRSILDGHIVLSRALAAAGHYPAIDVLKSISRLM  268 (326)
T ss_pred             HHhhhhccceEEEEcCcHHHcCCCCCcccccccccCc
Confidence            996             889999999999999999975

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=100.00  E-value=2.3e-60  Score=465.32  Aligned_cols=240  Identities=22%  Similarity=0.289  Sum_probs=218.6

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+ ..   .....++.+.||+.|..+++++  .||+++||.|+||++|||++|||++|+|||+|+.+|
T Consensus       102 id~~G~pld~~~~~-~~---~~~~i~~~~p~~~~r~~v~~~l--~tGi~aID~ll~i~~GqrigI~G~sG~GKSTLL~~I  175 (433)
T PRK07594        102 IDGFGRPLDGRELP-DV---CWKDYDAMPPPAMVRQPITQPL--MTGIRAIDSVATCGEGQRVGIFSAPGVGKSTLLAML  175 (433)
T ss_pred             EcccCCCcCCCCCC-cc---cccccccCCCCceeccCHhhee--CCCceeeeeeeecCCCCEEEEECCCCCCccHHHHHh
Confidence            34568888766542 11   2223567888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .+.+||++||||.+|+.++.+.+.+.+.++++++|++++|+|+.+|++++|+|+++||||
T Consensus       176 ~~~~~---------------~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~~~a~tiAEyf  240 (433)
T PRK07594        176 CNAPD---------------ADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFF  240 (433)
T ss_pred             cCCCC---------------CCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            88763               456899999999999988777777788899999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+||||++||+||||+|+||||+++||||+++||||++|+.|++|+||||.  +++||||+||+|++|+||++|||
T Consensus       241 rd~-G~~VLl~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~--~~~GSIT~~~tVl~~gdD~~dpi  317 (433)
T PRK07594        241 RDN-GKRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGM--GEKGSITAFYTVLVEGDDMNEPL  317 (433)
T ss_pred             HHC-CCcEEEEEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhHHHhHHHHHhhcC--CCCcchheeeeeeecCCCCCCch
Confidence            998 999999999999999999999999999999999999999999999999996  36999999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||..
T Consensus       318 ~d~~~~ilDG~IvLsr~la~~g~yPAIDvl~S~SR~~  354 (433)
T PRK07594        318 ADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVF  354 (433)
T ss_pred             HHHhhhhcceEEEEcHHHHhCCCCCccCCcccccccc
Confidence            997             889999999999999999875

>PRK05922 type III secretion system ATPase; Validated

Probab=100.00  E-value=1.6e-58  Score=452.06  Aligned_cols=239  Identities=19%  Similarity=0.238  Sum_probs=213.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+..-++   ....+.+.||..|.+++++|  +||||+||+|+||++|||++|||++|+|||+|+.+|
T Consensus       103 ~d~~G~pld~~~~~~~~~~---~pi~~~~~~~~~R~~i~e~l--~TGIr~ID~ll~I~~GqrigI~G~nG~GKSTLL~~I  177 (434)
T PRK05922        103 LDGFGNPLDGKEQLPKTHL---KPLFSSPPSPMSRQPIQEIF--PTGIKAIDAFLTLGKGQRIGVFSEPGSGKSSLLSTI  177 (434)
T ss_pred             eCCCCCccCCCCCCCccce---eecccCCCChhhcCCcceec--CCCceeecceEEEcCCcEEEEECCCCCChHHHHHHH
Confidence            3567888887766553222   23467888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++.               +.+.++|++||||.+++.++.+.+.+...+++|++|++|+|+||.+|++++++|+++||||
T Consensus       178 a~~~---------------~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~~a~tiAEyf  242 (434)
T PRK05922        178 AKGS---------------KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAMTIAEYF  242 (434)
T ss_pred             hccC---------------CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            9886               3578999999999988877777776777789999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++||||||+.  ++||||+|++|++++| ..|||
T Consensus       243 rd~-G~~VLl~~DslTR~A~A~REisl~~ge~P~~~gyp~svfs~l~~l~ERag~~--~~GSIT~~~tVl~~~~-~~dpi  318 (434)
T PRK05922        243 RDQ-GHRVLFIMDSLSRWIAALQEVALARGETLSAHHYAASVFHHVSEFTERAGNN--DKGSITALYAILHYPN-HPDIF  318 (434)
T ss_pred             HHc-CCCEEEeccchhHHHHHHHHHHHhcCCCCCcCCcCchHHHHhHHHHHhhcCC--CCcceeEEEEEEecCC-CCCcc
Confidence            998 9999999999999999999999999999999999999999999999999994  5899999999999998 67888


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +++.. +|||||+..|-||-.
T Consensus       319 ~d~~rsilDGhIvLsr~la~~-~~PAIDvl~S~SR~~  354 (434)
T PRK05922        319 TDYLKSLLDGHFFLTPQGKAL-ASPPIDILTSLSRSA  354 (434)
T ss_pred             ccchhhhcCcEEEEcHHHHhC-CCCCcCCccccccCC
Confidence            776             46554 599999999998854

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=9.2e-59  Score=454.12  Aligned_cols=242  Identities=23%  Similarity=0.281  Sum_probs=218.2

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   .......+.||..|.++++++  .||+++||.++|+++||+++|||++|+|||+|+.+|
T Consensus       103 iD~~G~plD~~g~~~~~~---~~~i~~~~~~~~~R~~i~~~l--~tgi~aid~l~~i~~Gq~~~i~G~sG~GKStLl~~i  177 (434)
T PRK08472        103 VDPLGRPIDGKGAIDYER---YAPIMKAPIAAMKRGLIDEVF--SVGVKSIDGLLTCGKGQKLGIFAGSGVGKSTLMGMI  177 (434)
T ss_pred             ECCCCCcccCCCCCCccc---ccccccCCCCHHHcCCcceec--cchhHHhhhcceecCCCEEEEECCCCCCHHHHHHHH
Confidence            356788888776654332   234567788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++++.               .+++||++||||.++++++.+... .+.++++++|++|+|+||++|++++++|+++||||
T Consensus       178 ~~~~~---------------~~v~vi~~iGergrev~e~~~~~l-~~~l~~tvvV~atsddsp~~R~~~~~~a~~iAEyF  241 (434)
T PRK08472        178 VKGCL---------------APIKVVALIGERGREIPEFIEKNL-GGDLENTVIVVATSDDSPLMRKYGAFCAMSVAEYF  241 (434)
T ss_pred             hhccC---------------CCEEEEEeeCccchhHHHHHHHHh-cCcccceEEEEECCCCCHHHhhHHHHHHHHHHHHH
Confidence            98873               468999999999988776655433 34489999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+||||++||+||||+|+|||++++||||+++||||++|+.|++||||||+.+ ++||||+|++|++|+||++|||
T Consensus       242 rd~-G~~Vll~~DslTr~A~A~REi~l~~ge~P~~~Gyp~~vf~~l~~l~ERag~~~-g~GSIT~~~tVlv~gdD~~dpi  319 (434)
T PRK08472        242 KNQ-GLDVLFIMDSVTRFAMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAGKEE-GKGSITAFFTVLVEGDDMSDPI  319 (434)
T ss_pred             HHc-CCCEEEecccchHHHHHHHHHHHhcCCCCCccCcCchHHHHHHHHHHHhccCC-CCceeeEeEEEEecCCCCCCCc
Confidence            998 99999999999999999999999999999999999999999999999999975 4899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|+             +|+.+++|||||+..|.||.+.
T Consensus       320 ~d~~~~i~Dg~ivLsr~la~~g~~PAIDvl~S~SR~~~  357 (434)
T PRK08472        320 ADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMN  357 (434)
T ss_pred             hHHhhhhcceEEEEcHHHHhCCCCCccCCccccCccch
Confidence            997             8899999999999999998753

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=8.1e-58  Score=448.26  Aligned_cols=243  Identities=23%  Similarity=0.331  Sum_probs=216.5

Q ss_pred             cccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595           3 AVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus         3 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +..|++.+....+...+  .+...++.+.||..|..+++++  .||+++||.|+||++|||++|||++|+|||+|+.+|+
T Consensus       111 d~~G~piDg~~~~~~~~--~~~~i~~~~p~~~~r~~v~~~l--~TGi~aID~L~~I~~Gqri~I~G~SGsGKTTLL~~Ia  186 (450)
T PRK06002        111 NALGEPIDGLGPLAPGT--RPMSIDATAPPAMTRARVETGL--RTGVRVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLA  186 (450)
T ss_pred             CCCCcCCCCCCCCCCCc--ceeeccCCCCCCeEeecceEEc--CCCcEEeeeeceecCCcEEEEECCCCCCHHHHHHHHh
Confidence            56788887665544322  1234667888999999999999  9999999999999999999999999999999999888


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      +...               .+.++|+++|||.+++.++.+..... .+++++.|++++|+||.+|++++++|+++|||||
T Consensus       187 ~l~~---------------pd~gvv~liGergrev~e~~~~~l~~-~r~rtI~vV~qsd~~~~~r~~~~~~a~~iAEyfr  250 (450)
T PRK06002        187 RADA---------------FDTVVIALVGERGREVREFLEDTLAD-NLKKAVAVVATSDESPMMRRLAPLTATAIAEYFR  250 (450)
T ss_pred             CCCC---------------CCeeeeeecccCCccHHHHhHHHHHH-hhCCeEEEEEcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            7652               45789999999999988776543332 3778999999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccc
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAA  242 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~  242 (293)
                      ++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++|+||||+..+++||||+||||++|+||++|||+
T Consensus       251 d~-G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gyp~~vf~~l~~l~ERag~~~~~~GSIT~~~tvl~~~dd~~dpI~  329 (450)
T PRK06002        251 DR-GENVLLIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSELPRLLERAGPGAEGGGSITGIFSVLVDGDDHNDPVA  329 (450)
T ss_pred             Hc-CCCEEEeccchHHHHHHHHHHHHhcCCCCccccCCccHHHHhhHHHHHhccCCCCCeeeeEEEEEEecCCCCCCccH
Confidence            98 99999999999999999999999999999999999999999999999999964468999999999999999999999


Q ss_pred             cc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         243 RE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       243 ~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+             +|+.+++|||||+..|.||.+.
T Consensus       330 d~~~~i~Dg~ivLsr~la~~g~~PAIDv~~S~SR~~~  366 (450)
T PRK06002        330 DSIRGTLDGHIVLDRAIAEQGRYPAVDPLASISRLAR  366 (450)
T ss_pred             HHHHhhcceEEEEcHHHHhCCCCCccCCccccCcccc
Confidence            97             8899999999999999999764

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=100.00  E-value=2.6e-57  Score=445.64  Aligned_cols=243  Identities=21%  Similarity=0.300  Sum_probs=219.9

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+.....+..+  ......+.+.||..|.++++++  .||+++||.++||++|||++|||++|+|||+|+.+|
T Consensus       108 id~~G~plD~~~~~~~~~--~~~~i~~~~~~p~~R~~~~e~l--~TGi~~iD~l~~i~~Gq~~~I~G~sG~GKStLl~~I  183 (440)
T TIGR01026       108 LDGLGKPIDGKGKFLDNV--ETEGLITAPINPLKRAPIREIL--STGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMI  183 (440)
T ss_pred             ecCCCcccCCCCCCCCCc--cccccccCCCChHHccCccccc--cceeeeeeeccccCCCcEEEEECCCCCCHHHHHHHH
Confidence            456789888766333222  1223456788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .+..++++||+|.+++.++.+++...+.++|+++|++++|+||.+|++++++|+++||||
T Consensus       184 ~~~~~---------------~~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~~~a~t~AE~f  248 (440)
T TIGR01026       184 ARNTE---------------ADVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGAYVATAIAEYF  248 (440)
T ss_pred             hCCCC---------------CCEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            98762               467899999999999998887777667799999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++||+||||+|+||||+++||||+++||||++|+.+++|+|||+.  +++||||+|+||++++||++|||
T Consensus       249 rd~-G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gypp~~~~~l~~l~ERag~--~~~GSIT~i~tVl~~~~d~~dpi  325 (440)
T TIGR01026       249 RDQ-GKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAGA--SGKGSITAFYTVLVEGDDMNEPI  325 (440)
T ss_pred             HHC-CCCEEEEEeChHHHHHHHHHHHHhcCCCCcccccChhHHHHHHHHHHHhcc--CCCCeeeEEEEEEccCcCCCcch
Confidence            998 999999999999999999999999999999999999999999999999996  36899999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|+             +++.+++|||||+..|.||...
T Consensus       326 ~d~~~~i~dG~ivLsr~la~~~~~PAId~~~S~SR~~~  363 (440)
T TIGR01026       326 ADSVRGILDGHIVLSRALAQRGHYPAIDVLASISRLMT  363 (440)
T ss_pred             hhhhccccceEEEEecchhhCCccCccCCCcccccCcc
Confidence            996             8899999999999999999763

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=100.00  E-value=9.2e-57  Score=440.13  Aligned_cols=243  Identities=25%  Similarity=0.344  Sum_probs=221.3

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+. ......+.+.||..|.++++++  .||+++||.++|+++||+++|+|++|+|||+|+.+|
T Consensus        89 iD~~G~plD~~~~~~~~~~-~~~pi~~~~~~~~~R~~i~~~l--~tG~~~id~l~~i~~Gq~~~I~G~sG~GKStLl~~I  165 (422)
T TIGR02546        89 LDGFGRPLDGKGELPAGEI-ETRPLDADPPPPMSRQPIDQPL--PTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTLLGMI  165 (422)
T ss_pred             eCCCCCcccCCCCCCCCCc-eeeeccCCCcCHHHccCccccc--CCCceeehhhccccCCCEEEEECCCCCChHHHHHHH
Confidence            3567888877665433210 1223557888999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++.               +.+.++|++||+|.+++.++.+.....+.++++++|++++|+|+.+|++++++|+++||||
T Consensus       166 ~~~~---------------~~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~~~a~~~AE~f  230 (422)
T TIGR02546       166 ARGA---------------SADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAYTATAIAEYF  230 (422)
T ss_pred             hCCC---------------CCCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHHHHHHHHHHHH
Confidence            9876               2568999999999999998888888888899999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      |++ |+|||+++||+||||+|+||+++++||||+++||||++|+.|++||||||+  .++||||+|+||++|+||++|||
T Consensus       231 ~~~-g~~Vl~~~Dsltr~a~A~rei~l~~ge~P~~~gyp~~~f~~l~~l~ERag~--~~~GSIT~~~tv~~~~dd~~~pi  307 (422)
T TIGR02546       231 RDQ-GKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLPRLLERAGN--GEKGSITALYTVLVEGDDMNDPI  307 (422)
T ss_pred             HHC-CCcEEEEEeCchHHHHHHHHHHHhcCCCCcccccChhHHHHhHHHHHHhcC--CCCCceeEEEEEeccCCCCCCCc
Confidence            998 999999999999999999999999999999999999999999999999998  36999999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             +|+.+++|||||+..|.||+.
T Consensus       308 ~~~~~~i~dg~i~Lsr~la~~g~yPAId~~~S~SR~~  344 (422)
T TIGR02546       308 ADEVRSILDGHIVLSRALAERNHYPAIDVLASLSRVM  344 (422)
T ss_pred             hhhhhccccEEEEEcHHHHhCCCCCccCCccccccch
Confidence            986             889999999999999999975

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=7.5e-57  Score=440.66  Aligned_cols=242  Identities=18%  Similarity=0.272  Sum_probs=217.1

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+..-+   .....+.+.||..|.+++++|  +||+++||.++|+++||+++|||++|+|||||+.+|
T Consensus       101 ~d~~G~pld~~~~~~~~~---~~~~~~~~~~p~~R~~~~~~l--~TGi~aID~ll~I~~GQ~igI~G~sGaGKSTLl~~I  175 (434)
T PRK07196        101 INGLGEPLDGKGQLGGST---PLQQQLPQIHPLQRRAVDTPL--DVGVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMI  175 (434)
T ss_pred             eCcCCCCcCCCCCCCCCc---eeeccCCCCChHHhccccccc--ccceeeccceEeEecceEEEEECCCCCCccHHHHHH
Confidence            355688887665543222   223556789999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHh-hhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQD-FEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~-l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .+.+|+++||++.+++.++.++ +.+.+ +.|++++++++|.|+.+|+.+++.++++|||
T Consensus       176 ~g~~~---------------~dv~vig~IGerg~ev~ef~~~~l~~~g-l~rsvvv~~~~d~s~~~rl~a~e~a~~iAEy  239 (434)
T PRK07196        176 TRYTQ---------------ADVVVVGLIGERGREVKEFIEHSLQAAG-MAKSVVVAAPADESPLMRIKATELCHAIATY  239 (434)
T ss_pred             hcccC---------------CCeEEEEEEeeecHHHHHHHHHHhhhcc-cceEEEEEecCCCChhhhHHHHHHHHHHHHH
Confidence            88763               3567889999999888877754 65555 8899999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      |+++ |+|||+++||+||||+|+|||++++||||+++||||++|+.|++||||||+.+ ++||||+||+|++|+||++||
T Consensus       240 fr~~-g~~Vll~~Dsltr~a~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~~~-~~GSIT~~~tVl~~~dD~~dp  317 (434)
T PRK07196        240 YRDK-GHDVLLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRLAESAGNSS-GNGTMTAIYTVLAEGDDQQDP  317 (434)
T ss_pred             hhhc-cCCEEEeecchhHHHhhhhHHHHhcCCCCcccCcCHHHHHHhHHHHHHhhcCC-CCEEeeeeeEEEccCCCCCCc
Confidence            9998 99999999999999999999999999999999999999999999999999985 579999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+..|.||...
T Consensus       318 i~d~~~~ilDG~ivLsr~la~~g~yPAIDvl~S~SR~~~  356 (434)
T PRK07196        318 IVDCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMS  356 (434)
T ss_pred             hhHhhhhhcceEEEEcHHHHhCCCCCccCCccccCccch
Confidence            9997             8899999999999999998754

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=1e-56  Score=426.19  Aligned_cols=246  Identities=21%  Similarity=0.314  Sum_probs=219.7

Q ss_pred             CCcccCCCCCCCCceeE--EEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHH
Q psy5595           1 MKAVVGEEALTPDDLLY--LEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIA   78 (293)
Q Consensus         1 ~~~~~~~~~~~~~~~~~--~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~   78 (293)
                      |++|.||+.+....+-.  .++...+.+.  |- -.....-.|+|  +||||+||+|+|+.||.|++|||++|+|||.|+
T Consensus        90 i~nvlG~~iD~~~~~~~~~~~~~~Ih~~~--p~-~~e~~~~~EIl--eTGIKVIDll~P~~kGgKiGLFGGAGVGKTVl~  164 (468)
T COG0055          90 IFNVLGEPIDEKGPIKAEDFEKWPIHRKA--PS-FEELSTKTEIL--ETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLI  164 (468)
T ss_pred             chhccCCcccccCCCCccccceeeccCCC--Cc-hhhcccchhhh--hhCceEEEEecccccCceeeeeccCCccceeeH
Confidence            68999999887555432  2443333221  11 12233445788  999999999999999999999999999999999


Q ss_pred             HHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHH
Q psy5595          79 AQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA  158 (293)
Q Consensus        79 ~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiA  158 (293)
                      ++++++.++.            ++.++||+++|||.+|.++++++|++.|++++|++|++++|+||+.|++++.+++|+|
T Consensus       165 ~ELI~Nia~~------------h~g~SVFaGvGERtREGndLy~Em~es~vl~ktalv~gQMNEpPGaR~RValtGlT~A  232 (468)
T COG0055         165 QELINNIAKE------------HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVALTGLTMA  232 (468)
T ss_pred             HHHHHHHHHH------------cCCeEEEEeccccccchHHHHHHHHhcCCCCceeEEEeecCCCCcceeeehhhhhhHH
Confidence            9999999762            5789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcc
Q psy5595         159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       159 Eyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~  238 (293)
                      |||||++|+|||+++|+++||.+|.+|+|.++||+||..||+|.|-+++..|.||....  ++||||++++|++|+||++
T Consensus       233 EyfRD~~gqdVLlFIDNIfRftQAGsEVSalLGr~PSavGYQpTLatemg~lQERItst--k~GSITSiQavyvPaDDlT  310 (468)
T COG0055         233 EYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITST--KKGSITSVQAVYVPADDLT  310 (468)
T ss_pred             HHhhcccCCeEEEEehhhhHHhhcchHHHHHhccCccccccCchhHHHHHHHHHHHhcC--CCCceEEEEEEEeccccCC
Confidence            99999999999999999999999999999999999999999999999999999999884  6899999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      ||.|..             .++...+|||+||..|.|+..
T Consensus       311 DPapattFaHLDat~vLsR~ia~~GIyPAvDPL~StSr~l  350 (468)
T COG0055         311 DPAPATTFAHLDATTVLSRQIAALGIYPAVDPLDSTSRAL  350 (468)
T ss_pred             CcchhhhhhhcccceeeeHhHHhcCCCcccCccccccccc
Confidence            999874             788999999999999999854

>KOG1351|consensus

Probab=100.00  E-value=1.7e-54  Score=401.45  Aligned_cols=260  Identities=71%  Similarity=1.013  Sum_probs=244.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      |+=-|.+++.-..+|.-+|..   .+|-|+|||.|++|+|++  +|||.+||.|++|+||||++||+.+|.+++.++++|
T Consensus       109 fngsgkpid~gp~vl~edyld---i~gqpinp~~riypeemi--qtgis~idvmnsiargqkipifsaaglphneiaaqi  183 (489)
T KOG1351|consen  109 FNGSGKPIDKGPPVLAEDYLD---INGQPINPYARIYPEEMI--QTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI  183 (489)
T ss_pred             hcCCCCccCCCCCcChHHhhc---cCCCcCCcccccChHHHH--HhCchHHhhhhHHhccCccceeecCCCChhHHHHHH
Confidence            344466666666666655654   468999999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      |||++..+...|++...+.+++.+||+++|...|.++||++++.++|.|+++++|.+-+++|..+|...|+.|++.|||+
T Consensus       184 crqaglvk~~~k~~~d~~~dnfaivfaamgvnmetarffk~dfeengsm~~v~lflnlandptieriitprlalt~aefl  263 (489)
T KOG1351|consen  184 CRQAGLVKRPEKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEFL  263 (489)
T ss_pred             HHhcCccccCCcccccccccceeeeehhhcccHHHHHHHHhhHHhcCCccceEEEEecCCCCchhhhcchhhhHhHHHHH
Confidence            99999988889999998888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      +++++||||+|+.|++.||+|+||+|.+..|.|||+||||+||++++.+|||||++++++||||.+|++++|.||++|||
T Consensus       264 ayq~ekhvlviltdmssya~alrevsaareevpgrrg~pgymytdlatiyeragrvegr~gsitqipiltmpnddithpi  343 (489)
T KOG1351|consen  264 AYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPI  343 (489)
T ss_pred             HHhhcCeEEEEEeccHHHHHHHHHHHHhhhhCCCcCCCCceehhhHHHHHHHhcccccCCCceeeeeeEecCCcccCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cc-------------cccCCCCCCCCcccccccchhhh
Q psy5595         242 AR-------------EEVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~-------------~~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||             .++..+.+||-++...|-|+.++
T Consensus       344 pdltgyitegqiyvdrqlhnr~iyppinvlpslsrlmk  381 (489)
T KOG1351|consen  344 PDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMK  381 (489)
T ss_pred             CcccceeecceEEEehhhhcccCCCCcccchhHHHHHH
Confidence            98             28889999999999999998876

>PRK12678 transcription termination factor Rho; Provisional

Probab=100.00  E-value=1.6e-53  Score=424.47  Aligned_cols=224  Identities=17%  Similarity=0.181  Sum_probs=201.2

Q ss_pred             ceeEEEecce----------eecccccCCCccccCCC-CccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHH
Q psy5595          14 DLLYLEFLTK----------FEKNFVSQEGERSFTPR-DLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        14 ~~~~~e~~~~----------~~~~~~~~~p~~r~~p~-e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      .|+.|+..+.          .+....|.+|..|...+ +++  .||+|+||+|+|||||||++||||+|+|||+|+++|+
T Consensus       360 ~l~~v~~vNg~~~e~~~~r~~F~~Ltp~~P~~R~~le~e~~--~~giRvIDll~PIGkGQR~LIvgpp~aGKTtLL~~IA  437 (672)
T PRK12678        360 PLVRLDSVNGMSPEEAKKRPEFGKLTPLYPNERLRLETEPK--KLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIA  437 (672)
T ss_pred             eeeeEeeeCCCChHHhccCCCcccCCCCChHHhcccccCcc--cccceeeeeecccccCCEeEEeCCCCCCHHHHHHHHH
Confidence            5666665433          34677889999999998 888  9999999999999999999999999999999999999


Q ss_pred             HHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHH
Q psy5595          83 RQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA  162 (293)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr  162 (293)
                      ++..+         |+  .+..|||++||||+||+++|.+.+       +..||++|+|+||..|++++|+++++||||+
T Consensus       438 n~i~~---------n~--~~~~~ivvLIgERpeEVtdm~rsV-------kgeVVasT~D~p~~~~~~~a~~ai~~Ae~fr  499 (672)
T PRK12678        438 NAITT---------NN--PECHLMVVLVDERPEEVTDMQRSV-------KGEVIASTFDRPPSDHTTVAELAIERAKRLV  499 (672)
T ss_pred             HHHhh---------cC--CCeEEEEEEEeCchhhHHHHHHhc-------cceEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            99854         23  357888999999999999986654       3359999999999999999999999999999


Q ss_pred             HhcCCceEEEecchhHHHHHHHHHhhhcCC-----CCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCC-
Q psy5595         163 YQCEKHVLVILTDMSSYAEALREVSAAREE-----VPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDD-  236 (293)
Q Consensus       163 ~~~G~~VLli~Dsltr~a~A~reisl~~ge-----~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d-  236 (293)
                      ++ |+|||||+|||||||+||||+++..|+     +|+..+|||++|+.+++++|       ++||||+|+||++++|| 
T Consensus       500 e~-G~dVlillDSlTR~ArAyrev~~~sGr~lSGG~d~~a~ypP~~F~~~AR~iE-------~gGSLTii~TvLVETGS~  571 (672)
T PRK12678        500 EL-GKDVVVLLDSITRLGRAYNLAAPASGRILSGGVDSTALYPPKRFFGAARNIE-------NGGSLTIIATALVETGSK  571 (672)
T ss_pred             Hc-CCCEEEEEeCchHHHHHHHHhhcCCCCccCCCCchhhccCccHHHHHHHhhc-------cCccceeeEEEEeccCCc
Confidence            98 999999999999999999999999999     68899999999999999988       38999999999999655 


Q ss_pred             cccccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         237 FKVSAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       237 ~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +++||+++             +|+.+++|||||+.+|+|+.+
T Consensus       572 mDd~Ifeefkgtgn~elvLsR~LAerrifPAIDv~~S~SR~e  613 (672)
T PRK12678        572 MDEVIFEEFKGTGNMELKLDRKLADKRIFPAVDVNASGTRKE  613 (672)
T ss_pred             cCcchHHHHhhccCceeeECHHHHhCCCCCccCCCcCccccc
Confidence            88999975             899999999999999999975

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=100.00  E-value=3.9e-53  Score=408.42  Aligned_cols=229  Identities=16%  Similarity=0.209  Sum_probs=208.4

Q ss_pred             ceeEEEecce----------eecccccCCCccccCCCC--ccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595          14 DLLYLEFLTK----------FEKNFVSQEGERSFTPRD--LIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        14 ~~~~~e~~~~----------~~~~~~~~~p~~r~~p~e--~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++++|+..+.          .+++..|.||..|...++  ++  .||+|+||+|+|||||||++||||+|+|||+|+++|
T Consensus       112 ~l~~v~~vng~~~~~~~~r~~f~~l~p~~p~~R~~le~~~~~--~~~~rvID~l~PIGkGQR~lIvgppGvGKTTLaK~I  189 (416)
T PRK09376        112 ALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNPE--DLSTRIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNI  189 (416)
T ss_pred             ceEEEeeeCCCCHHHhcCCCCcccCCCCChhhcccccCCCCc--ccceeeeeeecccccCceEEEeCCCCCChhHHHHHH
Confidence            5666765433          447888999999999988  67  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++...         +|  .+.+|++++||||++++.++.+.+.       .+||++|+|+||..|+++++.+++.||||
T Consensus       190 an~I~~---------nh--FDv~~~VvLIgER~~EVtdiqrsIl-------g~vv~st~d~~~~~~~~~a~~~ie~Ae~~  251 (416)
T PRK09376        190 ANSITT---------NH--PEVHLIVLLIDERPEEVTDMQRSVK-------GEVVASTFDEPAERHVQVAEMVIEKAKRL  251 (416)
T ss_pred             HHHHHh---------hc--CCeEEEEEEeCCchhHHHHHHHHhc-------CcEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            998853         11  3567899999999999999999884       27999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEec-CCCcccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDDFKVS  240 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~-~~d~~dp  240 (293)
                      +++ |+||||++||+|||++|+||+++++||+|+ .||+++.|+.+++|+|||++++ ++||||+|+|++++ +++|+||
T Consensus       252 ~e~-G~dVlL~iDsItR~arAqrev~~~sG~~~s-gG~~~~~~~~~~r~f~~Arn~e-~~GSlT~i~T~LvetGs~mdd~  328 (416)
T PRK09376        252 VEH-GKDVVILLDSITRLARAYNTVVPSSGKVLS-GGVDANALHRPKRFFGAARNIE-EGGSLTIIATALIDTGSRMDEV  328 (416)
T ss_pred             HHc-CCCEEEEEEChHHHHHHHHhhhhccCCCCC-CCCChhHhhhhHHHHHhhcCCC-CCcceEEEEEEEecCCCCCCcc
Confidence            987 999999999999999999999999999999 9999999999999999999986 59999999999999 5559999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |+++             +||++|+|||||+.+|+||.+
T Consensus       329 I~ee~kg~~n~~ivLdR~lA~~r~fPAIDi~~S~sR~~  366 (416)
T PRK09376        329 IFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKE  366 (416)
T ss_pred             HHHHHhhhcCceEeECHHHHhcCCCCccCccccccccc
Confidence            9986             899999999999999999964

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=3.7e-53  Score=414.39  Aligned_cols=240  Identities=22%  Similarity=0.331  Sum_probs=214.4

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+....+...+   ....++.+.||..|..+++++  .||+|+||.++|+++|||++|||++|+|||+|+.+|
T Consensus       102 ~d~~G~piD~~~~~~~~~---~~~i~~~~~~~~~r~~i~~~l--~TGiraID~ll~I~~Gqri~I~G~sG~GKTtLl~~I  176 (432)
T PRK06793        102 LSANGEVLNEEAENIPLQ---KIKLDAPPIHAFEREEITDVF--ETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLGMI  176 (432)
T ss_pred             ECcCCccCCCCCCCCCcc---cccccCCCCCchheechhhcc--CCCCEEEeccceecCCcEEEEECCCCCChHHHHHHH
Confidence            356788888765443322   223556788899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHH-HHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFF-KQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~-~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .+..+++++|||.++++++ .+.+.+.| ++|+++|++++|+|+++|++++++|+++|||
T Consensus       177 a~~~~---------------~~~gvI~~iGerg~ev~e~~~~~l~~~g-l~~tvvv~~tsd~s~~~r~ra~~~a~~iAEy  240 (432)
T PRK06793        177 AKNAK---------------ADINVISLVGERGREVKDFIRKELGEEG-MRKSVVVVATSDESHLMQLRAAKLATSIAEY  240 (432)
T ss_pred             hccCC---------------CCeEEEEeCCCCcccHHHHHHHHhhhcc-cceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            98763               3466888999998777655 55777777 9999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ |+|||+++||+||||+|+||++++++|||+. |||+++|+.+++|+|||++.  ++||||++|+|++|+||++||
T Consensus       241 fr~~-G~~VLlilDslTr~a~A~reisl~~~e~p~~-G~~~~~~s~l~~L~ERag~~--~~GSiT~~~tvlv~~dD~~dp  316 (432)
T PRK06793        241 FRDQ-GNNVLLMMDSVTRFADARRSVDIAVKELPIG-GKTLLMESYMKKLLERSGKT--QKGSITGIYTVLVDGDDLNGP  316 (432)
T ss_pred             HHHc-CCcEEEEecchHHHHHHHHHHHHHhcCCCCC-CeeeeeeccchhHHHHhccC--CCcceEEEEEEEecCCCCCCc
Confidence            9998 9999999999999999999999999999996 99999999999999999996  489999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+..|.||.+.
T Consensus       317 I~d~~~si~DG~ivLsr~la~~g~~PAIDv~~S~SR~~~  355 (432)
T PRK06793        317 VPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIME  355 (432)
T ss_pred             chHHhhhhcceEEEEcHHHHhCCCCCccCCCcccCcCcc
Confidence            9997             8899999999999999998653

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=8.6e-53  Score=413.42  Aligned_cols=241  Identities=21%  Similarity=0.307  Sum_probs=213.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+... +..-+  ......+.+.||..|.++++++  .||+++||.++|+++||+++|+|++|+|||+|+.+|
T Consensus       104 ~d~~G~plD~~~-~~~~~--~~~~i~~~~p~p~~R~~i~~~l--~tg~~vid~l~~i~~Gq~i~I~G~sG~GKStLl~~I  178 (438)
T PRK07721        104 LDALGEPLDGSA-LPKGL--APVSTDQDPPNPLKRPPIREPM--EVGVRAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMI  178 (438)
T ss_pred             ECcCCCccCCCC-CCCcc--ccCCccCCCCChhhccCccccc--ccchhhhheeeeecCCcEEEEECCCCCCHHHHHHHH
Confidence            356788887654 22211  1223566788899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHh-hhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQD-FEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~-l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      +++..               .+..++.++|||.+++.++.++ +...+ ++++++|++++|+|+.+|++++|+|+++|||
T Consensus       179 ~~~~~---------------~~~gvI~~~Gerg~ev~e~~~~~l~~~~-l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEy  242 (438)
T PRK07721        179 ARNTS---------------ADLNVIALIGERGREVREFIERDLGPEG-LKRSIVVVATSDQPALMRIKGAYTATAIAEY  242 (438)
T ss_pred             hcccC---------------CCeEEEEEEecCCccHHHHHHhhcChhh-hcCeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            88762               3567889999999888776655 55444 8899999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      ||++ |+|||+++||+||||+|+||||+++||||+++|||+++|+.+++++||+++.  ++||||+|+||+++++|++||
T Consensus       243 fr~~-g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G~dp~~~~~l~~ller~~~~--~~GsIT~~~TVlv~~hdm~e~  319 (438)
T PRK07721        243 FRDQ-GLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTGTN--ASGSITAFYTVLVDGDDMNEP  319 (438)
T ss_pred             HHHC-CCcEEEEEeChHHHHHHHHHHHHhcCCCCccccCCHHHHHHHHHHHHHhcCC--CCCCeeeEEEEEEECCCCCch
Confidence            9998 9999999999999999999999999999999999999999999999999973  479999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ++|+             .++.+++|||||+..|.||...
T Consensus       320 i~d~v~~i~dG~Ivls~~la~~g~~PAIdv~~S~SR~~~  358 (438)
T PRK07721        320 IADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMN  358 (438)
T ss_pred             hhhhEEEecCEEEEEeccHHHCCCCCccCCccccccccc
Confidence            9996             8899999999999999999753

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=100.00  E-value=2.5e-53  Score=405.73  Aligned_cols=251  Identities=52%  Similarity=0.816  Sum_probs=232.6

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      |+=.|++++.-+.+..=++   ...+|.+.||..|.+|+++|  +|||++||.|+++.||||++||+++|.+++.|+++|
T Consensus        92 fnG~G~PiDggp~i~~e~~---~dI~g~~~NP~aR~yP~efI--qTgIsaIDg~NtLvrgQKlPIFSgSGlphN~LaaqI  166 (463)
T COG1156          92 FNGSGKPIDGGPEIVPEDR---LDINGAPINPYARIYPEEFI--QTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQI  166 (463)
T ss_pred             hcCCCCcCCCCCcCCCCcc---cccCCCCCCchhhhChhhHh--hcCccHHhhhhhhhcccccccccCCCCchHHHHHHH
Confidence            4556888888777764333   33679999999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+..        ... .+++.+||+++|-..+++.||.+++.+.|+++|+++|.+.+|+|+++|..+|.+|++.||||
T Consensus       167 arQA~v--------~~~-~e~favVfaamGit~eea~fF~~~fe~tGal~r~vlflnlA~dp~vEri~tPr~aLt~AEyl  237 (463)
T COG1156         167 ARQATV--------DGE-EEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVAEYL  237 (463)
T ss_pred             HHhccc--------CCC-ccceeEEEeecCccHHHHHHHHHHHHhhhhhhhhHhhhhccCCCceeEecchhHHHHHHHHH
Confidence            999953        222 26789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      +.++++|||+|+.|||+||+|+||||.+.+|.|+|+||||+||++|+.+|||||++++++||||.+|++++|+||+||||
T Consensus       238 A~e~~~hVLVilTDMTnyceALREIsaareeVPgrRGYPGymYTdLatiYErAg~i~g~~GSiTqipIlTMP~DDITHPI  317 (463)
T COG1156         238 AFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIRGRKGSITQIPILTMPGDDITHPI  317 (463)
T ss_pred             hccCCceEEEEEcchhHHHHHHHHHHhhhccCCCcCCCcchHHHHHHHHHHhhceeccCCCceEEEEeeecCCCCcCCCC
Confidence            99989999999999999999999999999999999999999999999999999999988999999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||.             ++..+++||-++...|-|+-..
T Consensus       318 PDlTGYITEGQivl~r~l~~~gIyPpi~vlpSLSRL~~  355 (463)
T COG1156         318 PDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMK  355 (463)
T ss_pred             CcccceeccceEEEEhhcccCCcCCCccccccHHHHhh
Confidence            995             6788999999999999888765

>PRK14698 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=1.3e-52  Score=443.37  Aligned_cols=165  Identities=30%  Similarity=0.491  Sum_probs=156.5

Q ss_pred             CceEEEEEecCccchhHHHHHHhhhh-------CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEe
Q psy5595         101 DNFAIVFAAMGVNMETARFFKQDFEE-------NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVIL  173 (293)
Q Consensus       101 ~~~~~V~~~iGer~e~~~~~~~~l~~-------~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~  173 (293)
                      +.++|||++||||.+|+.++.+++.+       .++|+||++|+||+|+|+++|++++|+|+|+||||||+ |+|||+++
T Consensus       681 ~adi~V~~~iGERg~Ev~e~l~~~~~l~~~~~g~~~m~rtvlv~~ts~~p~~~R~~s~y~a~tiAEyfrd~-G~~Vll~~  759 (1017)
T PRK14698        681 DAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDM-GYDVALMA  759 (1017)
T ss_pred             CCCEEEEEeeccchHHHHHHHHHHHhhcccccCccccccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHc-CCCEEEEe
Confidence            56899999999999999999988844       78899999999999999999999999999999999998 99999999


Q ss_pred             cchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeeeEEEecCCCcccccccc----
Q psy5595         174 TDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDDFKVSAARE----  244 (293)
Q Consensus       174 Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~~v~~~~~d~~dpi~~~----  244 (293)
                      ||+||||+|+||||+++||||+++|||+|+|+.|++||||||++.     +++||||++++|++|+||++|||+++    
T Consensus       760 Ds~sR~A~A~REis~~l~e~P~~~gyP~~l~s~L~~~~ERaG~~~~l~~~~~~GSIT~i~~V~~~g~D~s~Pv~~~~~~i  839 (1017)
T PRK14698        760 DSTSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRV  839 (1017)
T ss_pred             ccchHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhccCCcccCCCCCCcceEEEEEEECCCCCCCCcHHHHHHHH
Confidence            999999999999999999999999999999999999999999963     25799999999999999999999996    


Q ss_pred             ---------ccCCCCCCCCcccccccchhhh
Q psy5595         245 ---------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       245 ---------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                               +|+.+++|||||+..|.|+|..
T Consensus       840 ~dg~i~L~~~La~~g~~PAId~l~S~Sr~~~  870 (1017)
T PRK14698        840 VKVFWALDADLARRRHFPAINWLTSYSLYVD  870 (1017)
T ss_pred             hCcEEecCHHHHhCCCCCCcCcccchhhhcc
Confidence                     8899999999999999999964

>PRK12608 transcription termination factor Rho; Provisional

Probab=100.00  E-value=3.2e-52  Score=400.52  Aligned_cols=219  Identities=17%  Similarity=0.212  Sum_probs=200.5

Q ss_pred             ecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceE
Q psy5595          25 EKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFA  104 (293)
Q Consensus        25 ~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~  104 (293)
                      +.+..+.||..|...+... ..+|+|+||+|+|||||||++|+|++|+|||+|+.+|+++..+.         +  ++..
T Consensus        98 ~~~~~pi~p~~R~~ie~~~-~~~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~---------~--~dv~  165 (380)
T PRK12608         98 FDDLTPLHPRERLRLETGS-DDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN---------H--PEVH  165 (380)
T ss_pred             cCcCCCCCccccccccccC-cchhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc---------C--CCce
Confidence            5777888999998888663 36899999999999999999999999999999999999987531         1  2456


Q ss_pred             EEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHH
Q psy5595         105 IVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR  184 (293)
Q Consensus       105 ~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~r  184 (293)
                      |++++||||.+++++|++.+..       +++++++|+|+..|.++.++++++||||+++ |+||+|++||+||||+|||
T Consensus       166 ~vv~lIgER~~EV~df~~~i~~-------~Vvast~de~~~~~~~v~~~~~~~Ae~f~~~-GkdVVLvlDsltr~A~A~r  237 (380)
T PRK12608        166 LMVLLIDERPEEVTDMRRSVKG-------EVYASTFDRPPDEHIRVAELVLERAKRLVEQ-GKDVVILLDSLTRLARAYN  237 (380)
T ss_pred             EEEEEecCCCCCHHHHHHHHhh-------hEEeecCCCCHHHHHHHHHHHHHHHHHHHHc-CCCEEEEEeCcHHHHHHHH
Confidence            8999999999999999998843       7889999999999999999999999999998 9999999999999999999


Q ss_pred             HHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEec-CCCcccccccc-------------ccCCCC
Q psy5595         185 EVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDDFKVSAARE-------------EVPGRR  250 (293)
Q Consensus       185 eisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~-~~d~~dpi~~~-------------~la~~r  250 (293)
                      |+++++||+|+ +|||+++|+.+++|+||||+++ ++||||+|+||+++ +++++|||+|+             +||+++
T Consensus       238 ei~~~~G~~~s-~G~~~s~~~~~~rl~~~A~~~~-~~GSiT~i~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~~  315 (380)
T PRK12608        238 NEVESSGRTLS-GGVDARALQRPKRLFGAARNIE-EGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKR  315 (380)
T ss_pred             hhhcccCCCCC-CCcChHHHhhhHHHHHhcCCCC-CCcchhheEEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhCC
Confidence            99999999999 8999999999999999999985 59999999999999 66699999997             899999


Q ss_pred             CCCCcccccccchhh
Q psy5595         251 GFPGYMYTNLATIYE  265 (293)
Q Consensus       251 ~~Pai~~~~~~s~~~  265 (293)
                      +|||||+.+|+||-+
T Consensus       316 ~fPAIDi~~S~sR~~  330 (380)
T PRK12608        316 VFPAIDIAKSGTRRE  330 (380)
T ss_pred             CCCccCcccccCcch
Confidence            999999999999954

>PRK06315 type III secretion system ATPase; Provisional

Probab=100.00  E-value=6e-51  Score=399.86  Aligned_cols=242  Identities=25%  Similarity=0.368  Sum_probs=213.2

Q ss_pred             cccCCCCCC--CCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595           3 AVVGEEALT--PDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus         3 ~~~~~~~~~--~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      +..|++.+.  ...+...+  ......+.+.||..|.++++++  .||+|+||.++||++|||++|||++|+|||+|+.+
T Consensus       108 d~~G~pld~~~~~~~~~~~--~~~~i~~~~~~~~~R~~~~e~l--~TGi~aID~~l~i~~Gq~i~I~G~sG~GKStLl~~  183 (442)
T PRK06315        108 NGLGEPIDTETKGPLENVD--ETYPIFRAPPDPLHRAKLRTIL--STGVRCIDGMLTVARGQRIGIFAGAGVGKSSLLGM  183 (442)
T ss_pred             eccCcccccccCCCccccc--ceeeeecCCCChHHcccccccc--cceEEEEeccccccCCcEEEEECCCCCCcchHHHH
Confidence            456888776  43433221  1122456788899999999999  99999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHH-HhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFK-QDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE  159 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~-~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAE  159 (293)
                      |+++...              .+..|+++||||.+++.++. +.+.+.+ ++++++|++|++++|..++..+++++++||
T Consensus       184 I~~~~~~--------------~~~~vi~liGerg~ev~~~~~~~l~~~g-~~~svvvvats~q~p~~rlnp~~va~~IAE  248 (442)
T PRK06315        184 IARNAEE--------------ADVNVIALIGERGREVREFIEGDLGEEG-MKRSVIVVSTSDQSSQLRLNAAYVGTAIAE  248 (442)
T ss_pred             hhccccc--------------CCceEEEEECCCchHHHHHHHHHHHhcC-CceEEEEEeCCCCCHHHHhhHHHHHHHHHH
Confidence            9987621              23468899999998886554 4466655 889999999999999999999999999999


Q ss_pred             HHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccc
Q psy5595         160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       160 yfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |||++ |++||+++|++|||++|+|||++++|+||++++|||++|+.|++||||||+.  ++||||+||||++++||++|
T Consensus       249 ~~r~~-g~~Vl~~~Ds~tR~a~alreV~L~~gepp~~~gypP~~fS~l~~llERag~~--~~GSITai~tVl~~gdD~~d  325 (442)
T PRK06315        249 YFRDQ-GKTVVLMMDSVTRFARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSGAS--DKGTITAFYTVLVAGDDMNE  325 (442)
T ss_pred             HHHHc-CCCcchhhhHHHHHHHHHHHhCcCCCCCccccCCCCchhhHhHHHHHHhcCC--CCcceeeeEEEEecCCCCCc
Confidence            99998 9999999999999999999999999999999999999999999999999985  58999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||+|+             +++.+++|||||+..|.||...
T Consensus       326 pi~d~~~~i~dg~ivLsr~la~~g~~Paidv~~S~SR~~~  365 (442)
T PRK06315        326 PVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLT  365 (442)
T ss_pred             ccHHHhhhhcceEEEEeccHHHcCCCCCccchhhhcccch
Confidence            99997             8899999999999999998763

>KOG1350|consensus

Probab=100.00  E-value=1.2e-51  Score=385.46  Aligned_cols=246  Identities=20%  Similarity=0.301  Sum_probs=219.8

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .||+||+++.--.+--.-|...+.+.  |- -.+-..-.|++  +||||++|+|.|..||.|+++||++|+|||.|++++
T Consensus       137 ~NViGePiDerGpi~s~~~~~IHaea--P~-f~e~s~~~eIl--~TGIKVvDLLAPYakGGKIGLFGGAGVGKTVlImEL  211 (521)
T KOG1350|consen  137 MNVIGEPIDERGPIKSKKYSPIHAEA--PE-FVEMSVEQEIL--VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMEL  211 (521)
T ss_pred             HHhcCCcccccCCcccccccccccCC--hh-HhhhcccHHHH--hhcceeeeeecccccCCeeeeeccCCccceeeHHHH
Confidence            58999999877766544444443221  11 02223345677  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCcc------ccEEEEeeCCCCchhhhhchHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSM------ENVCLFLNLANDPTIERIITPRLAL  155 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~------~~tvvv~stsd~~~~~r~~a~~~a~  155 (293)
                      +|+.+|+            ++.++||+++|||.+|.+++++++.+.|++      +|..+|+.++++||+.|.+++.+++
T Consensus       212 INNiAKa------------HGGySVF~GvGERTREGNDLY~EM~E~gVI~l~~~~SKvaLV~GQMNePPGARaRV~LTgL  279 (521)
T KOG1350|consen  212 INNIAKA------------HGGYSVFAGVGERTREGNDLYHEMIESGVINLEGETSKVALVYGQMNEPPGARARVALTGL  279 (521)
T ss_pred             HHHHHHh------------cCCeEEeeccccccccccHHHHHHHhcCeeeccCCcceEEEEeeccCCCCCceeeeeeecc
Confidence            9999885            578999999999999999999999999886      6888999999999999999999999


Q ss_pred             HHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCC
Q psy5595         156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPND  235 (293)
Q Consensus       156 tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~  235 (293)
                      ++||||||++|+|||+++|+++||.+|.+|+|.++||+|+..||+|.+-+++..+.||....  ++||||++++|++|+|
T Consensus       280 TvAEYFRD~egQDVLLFIDNIFRFtQAGSEVSALLGRiPSAVGYQPTLaTdMG~mQERITtT--kkGSiTSvQAvYVPAD  357 (521)
T KOG1350|consen  280 TVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--KKGSITSVQAVYVPAD  357 (521)
T ss_pred             cHHHHhhccccceEEEeehhhhhhhccchHHHHHhccCccccccCcccccchhhhhHhhhcc--ccCceeEEEEEEeehh
Confidence            99999999999999999999999999999999999999999999999999999999999884  6899999999999999


Q ss_pred             Ccccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         236 DFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       236 d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |++||.|..             .|++..+|||+|+.+|.|+.++
T Consensus       358 DLtDPaPattFaHLDAttVLSR~iaelgIYPAVDPLDStSrimd  401 (521)
T KOG1350|consen  358 DLTDPAPATTFAHLDATTVLSRGIAELGIYPAVDPLDSTSRIMD  401 (521)
T ss_pred             ccCCCCccceeeccchhhhhhhhhHhcCCccccCCccccccccC
Confidence            999999985             6778889999999999999765

>TIGR00767 rho transcription termination factor Rho

Probab=100.00  E-value=3.1e-47  Score=368.53  Aligned_cols=218  Identities=16%  Similarity=0.229  Sum_probs=191.4

Q ss_pred             cccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEE
Q psy5595          26 KNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI  105 (293)
Q Consensus        26 ~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~  105 (293)
                      ++-.+..|..|...+.- .+..|+|+||+++|||+|||++|+|++|+|||+|+.+|++....         |  ..+..|
T Consensus       134 e~LTf~YP~er~~Le~~-~~~~~~R~id~~~pig~Gq~~~IvG~~g~GKTtL~~~i~~~I~~---------n--hfdv~v  201 (415)
T TIGR00767       134 ENLTPLYPNERLRLETS-TEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITR---------N--HPEVEL  201 (415)
T ss_pred             EEeeecCCCccceeecC-ccccceeeeeeEEEeCCCCEEEEECCCCCChhHHHHHHHHhhcc---------c--CCceEE
Confidence            34444445555333210 12578999999999999999999999999999999999998743         1  134578


Q ss_pred             EEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHH
Q psy5595         106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALRE  185 (293)
Q Consensus       106 V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~re  185 (293)
                      ++++||||++++.++.+.+.       ..+|++++|+|+..|..+++.+++.||||+++ |+||+|++||++|||+|+||
T Consensus       202 ~VlLIgER~~EVtDLqrsIl-------g~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~-GkdVVLlIDEitR~arAqre  273 (415)
T TIGR00767       202 IVLLIDERPEEVTDMQRSVK-------GEVVASTFDEPASRHVQVAEMVIEKAKRLVEH-KKDVVILLDSITRLARAYNT  273 (415)
T ss_pred             EEEEcCCCCccHHHHHHHhh-------ceEEEecCCCChHHHHHHHHHHHHHHHHHHHc-CCCeEEEEEChhHHHHHHHH
Confidence            99999999999999999873       48999999999999999999999999999988 99999999999999999999


Q ss_pred             HhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEec-CCCcccccccc-------------ccCCCCC
Q psy5595         186 VSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDDFKVSAARE-------------EVPGRRG  251 (293)
Q Consensus       186 isl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~-~~d~~dpi~~~-------------~la~~r~  251 (293)
                      +++++||||+ +|||+++|+.+++|+|||++++ ++||||+|+||+++ +++|+|||+++             +||++++
T Consensus       274 i~~~~G~~~s-~G~~~~~~~~~~~~~~~a~~~~-~~GSiT~~~TvLvetg~~mdd~i~~e~kg~~~~~ivL~r~la~~~~  351 (415)
T TIGR00767       274 VTPASGKVLS-GGVDANALHRPKRFFGAARNIE-EGGSLTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRI  351 (415)
T ss_pred             hHhhcCCCCC-CCcChhhhcccHHHHhhcCCCC-CCcchhheEEEEeccCCCCCcchHHHhccccCCeEEECHHHHhCCC
Confidence            9999999999 9999999999999999999986 59999999999999 55589999996             8899999


Q ss_pred             CCCcccccccchhh
Q psy5595         252 FPGYMYTNLATIYE  265 (293)
Q Consensus       252 ~Pai~~~~~~s~~~  265 (293)
                      |||||+.+|+||-+
T Consensus       352 fPAidi~~S~sR~~  365 (415)
T TIGR00767       352 FPAIDIKKSGTRKE  365 (415)
T ss_pred             CCCcCcccccccch
Confidence            99999999999854

Members of this family differ in the specificity of RNA binding.

>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

Probab=100.00  E-value=3.9e-48  Score=378.97  Aligned_cols=237  Identities=26%  Similarity=0.360  Sum_probs=217.4

Q ss_pred             CCCceeEEEecceeecccccCCCccccCCC---------CccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595          11 TPDDLLYLEFLTKFEKNFVSQEGERSFTPR---------DLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        11 ~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~---------e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+|.+.++|.+++..+..|.| -||.+.|+         +||  .||.|+||+|+|+.||....|.||+|+|||.+.+++
T Consensus       168 v~d~ia~v~~~~g~~~~~m~~-~WPVR~~rp~~eKl~p~~Pl--~TGqRviDt~FPvaKGGTaaiPGpFGsGKTV~qh~l  244 (588)
T COG1155         168 VEDVIATVSTEGGEVDVQMMT-TWPVRKARPVKRKLPPEIPL--VTGQRVIDTLFPVAKGGTAAVPGPFGSGKTVSQHTL  244 (588)
T ss_pred             eeEEEEEEecCCCeEEEEEEE-eccccCCccccccCCCCCcc--cccceeehhhcccccCccccccCCCCCCcEehhhhh
Confidence            468899999988866667887 58876665         467  899999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhh-------hCCccccEEEEeeCCCCchhhhhchHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFE-------ENGSMENVCLFLNLANDPTIERIITPRLA  154 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~-------~~g~~~~tvvv~stsd~~~~~r~~a~~~a  154 (293)
                      ++++.               .+++||++||||..|.+++..++.       ...+|+||++++||+++|...|+.+.|+|
T Consensus       245 aK~sd---------------adiVVyigCGERGNEmtevL~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtG  309 (588)
T COG1155         245 SKLAD---------------GDIVIYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTG  309 (588)
T ss_pred             hhhcc---------------CCEEEEEecCCccchHHHHHHhCccccCCCCCCcccceeeEeecCccchHHHhhhhhhhh
Confidence            99984               689999999999988888877664       35568999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC-----CCcceeeeeE
Q psy5595         155 LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG-----RNGSITQIPI  229 (293)
Q Consensus       155 ~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~-----~~GSiT~i~~  229 (293)
                      .|+||||||+ |+||+++.||.+|||+|+||+|..++|+|+.+|||.+|-+.++++|||||++..     +-||+|++++
T Consensus       310 iTiaEY~RDm-Gy~v~lmADSTSRWAEAlREisgRleEmPgeegyPaYL~srlA~fYERaG~v~~~~~~~r~GsvtV~ga  388 (588)
T COG1155         310 ITIAEYYRDM-GYDVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSITVIGA  388 (588)
T ss_pred             hhHHHHHHhh-hhhhHHhhchHHHHHHHHHHHhcccccCCcccccchHHHHHHHHHHHhcCeeeecCCCcceEEEEEecC
Confidence            9999999999 999999999999999999999999999999999999999999999999999853     4599999999


Q ss_pred             EEecCCCcccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         230 LTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       230 v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |..++||+++|+..+             .+|.+||||+++|+.+.|.|..
T Consensus       389 VSPpGGdfSEPVtq~Tlriv~vFw~Ld~~la~~rhfPaInwl~syS~Y~~  438 (588)
T COG1155         389 VSPPGGDFSEPVTQNTLRVVRVFWALDAALANRRHFPSINWLNSYSLYTE  438 (588)
T ss_pred             CCCCCCCcCcccchheeeeeeeecccchhhhhcccCcccChHHHHHHHHH
Confidence            999999999999985             8899999999999999999864

>KOG1352|consensus

Probab=100.00  E-value=5.5e-48  Score=367.95  Aligned_cols=238  Identities=27%  Similarity=0.392  Sum_probs=218.8

Q ss_pred             CCCceeEEEecceeecccccCCCccccCCCC---------ccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595          11 TPDDLLYLEFLTKFEKNFVSQEGERSFTPRD---------LIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        11 ~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e---------~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+|.++|+||.+++.+..|-| -|+.+.|++         ||  .||.|++|+|+||..|....|.|..|||||.+-+.+
T Consensus       189 ~~d~vlE~Ef~g~k~~~tmlq-~WPVR~pRPv~ekl~an~PL--ltGQRvLDalfPcVqGGTtaIPGAFGCGKTVISQsL  265 (618)
T KOG1352|consen  189 LDDVVLELEFDGEKTKFTMLQ-TWPVRQPRPVTEKLPANHPL--LTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSL  265 (618)
T ss_pred             cccEEEEEeecCceeeEEEEE-ecccCCCcchhhccCCCCcc--cccchHHHhhcchhcCCccccCcccccchHHHHHHH
Confidence            478899999999999999988 699999986         45  799999999999999999999999999999998887


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhh---------hCCccccEEEEeeCCCCchhhhhchHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFE---------ENGSMENVCLFLNLANDPTIERIITPR  152 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~---------~~g~~~~tvvv~stsd~~~~~r~~a~~  152 (293)
                      ....               ..+.+||++||||..|..++..++.         ...+|+||.+|+||+++|...|.++.|
T Consensus       266 SKYS---------------NSD~iiYVGCGERGNEMsEVL~dFPeLt~ev~G~~esiMKRT~LVANTSNMPVAAREASIY  330 (618)
T KOG1352|consen  266 SKYS---------------NSDAIIYVGCGERGNEMSEVLMDFPELTMEVDGKTESIMKRTALVANTSNMPVAAREASIY  330 (618)
T ss_pred             hhcc---------------CCCeEEEEcccccchhHHHHHHhChhhEEecCCcchhhhhhhhhhhcCCCCchhhhhhhhh
Confidence            7655               3589999999999877776665554         345689999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeee
Q psy5595         153 LALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQI  227 (293)
Q Consensus       153 ~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i  227 (293)
                      ++++++|||||+ |+||-.+.||.+|||+|+||||..+.|+|.-.|||.++-..|+++|||||+++     ++.||+|++
T Consensus       331 TGITlsEYfRDm-G~nVsMmADStSRWAEALREISGRLaEMPADsGyPAYLgArLAsFYERAG~vkcLGsP~ReGsVsIV  409 (618)
T KOG1352|consen  331 TGITLSEYFRDM-GYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPDREGSVSIV  409 (618)
T ss_pred             hcccHHHHHHhc-CcceeeeecchhHHHHHHHHhhhhhhcCcCcCCCcHHHHHHHHHHHHhcCceeecCCCCcCceeEEE
Confidence            999999999999 99999999999999999999999999999999999999999999999999985     479999999


Q ss_pred             eEEEecCCCcccccccc-------------ccCCCCCCCCcccccccchhhhc
Q psy5595         228 PILTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYERA  267 (293)
Q Consensus       228 ~~v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r~  267 (293)
                      .+|..|+||++||+...             +||+++|||.++|+-|.|.|.|+
T Consensus       410 gAVSPpGGDFsDPVTsATLgIvQVFWGLDKKLAQRKHFPSiNwliSYSkY~~a  462 (618)
T KOG1352|consen  410 GAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSINWLISYSKYMRA  462 (618)
T ss_pred             EeecCCCCCcCCcchhhhhheeeehhcccHHHHhhccCCccchhhhHHHHHHH
Confidence            99999999999999874             89999999999999999999873

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=100.00  E-value=8.3e-43  Score=320.61  Aligned_cols=196  Identities=16%  Similarity=0.222  Sum_probs=177.5

Q ss_pred             CceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhC
Q psy5595          48 GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEEN  127 (293)
Q Consensus        48 GiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~  127 (293)
                      ..|+||+|+||++|||++|||++|+|||+|+.+|+++...           ...+.+++++++|+|+.++.++.+.+   
T Consensus         3 ~~~~id~~~~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~-----------~~fdv~~~v~vI~er~~ev~el~~~I---   68 (249)
T cd01128           3 STRVVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITK-----------NHPEVYLIVLLIDERPEEVTDMQRSV---   68 (249)
T ss_pred             chhheeeecccCCCCEEEEECCCCCCHHHHHHHHHhcccc-----------ccCCeEEEEEEccCCCccHHHHHHHh---
Confidence            3699999999999999999999999999999999998742           11134667778999999999998887   


Q ss_pred             CccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhH
Q psy5595         128 GSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNL  207 (293)
Q Consensus       128 g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~l  207 (293)
                          ++++|++++|+|+..|+++++.+++.||||+++ |++|++++|+++||++|+||++...|++| ..|||+++|+.+
T Consensus        69 ----~~~~v~~~~~~~~~~~~~~~~~~~~~a~~~~~~-G~~vll~iDei~r~a~a~~ev~~~~G~~~-sgG~~~~~~~~~  142 (249)
T cd01128          69 ----KGEVIASTFDEPPERHVQVAEMVLEKAKRLVEH-GKDVVILLDSITRLARAYNTVVPPSGKIL-SGGVDANALHKP  142 (249)
T ss_pred             ----ccEEEEecCCCCHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEECHHHhhhhhhhccccCCCCC-CCCcChhhhhhh
Confidence                679999999999999999999999999999987 99999999999999999999999999999 689999999999


Q ss_pred             HHHhhhhcccCCCCcceeeeeEEEecC-CCcccccccc-------------ccCCCCCCCCcccccccchh
Q psy5595         208 ATIYERAGRVEGRNGSITQIPILTMPN-DDFKVSAARE-------------EVPGRRGFPGYMYTNLATIY  264 (293)
Q Consensus       208 a~l~ERag~~~~~~GSiT~i~~v~~~~-~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~  264 (293)
                      ++++||||.+. ++||||+++|+++++ ++++||+.++             +++..++||+|++.+++++-
T Consensus       143 ~q~~~~Ar~~~-~~gsIt~l~T~~~d~~~~~~~~i~~~~~~~~~~~ivls~~la~~~~~paI~vl~s~sr~  212 (249)
T cd01128         143 KRFFGAARNIE-EGGSLTIIATALVDTGSRMDDVIFEEFKGTGNMELVLDRRLAERRIFPAIDILKSGTRK  212 (249)
T ss_pred             HHHHHHhcCCC-CCCceEEeeeheecCCCcccchHHHHHhcCCCcEEEEchHHhhCCCCCeEEEcCCCCcc
Confidence            99999999975 599999999999995 5577797664             78899999999999999984

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>COG1158 Rho Transcription termination factor [Transcription]

Probab=100.00  E-value=1.5e-42  Score=325.69  Aligned_cols=218  Identities=17%  Similarity=0.234  Sum_probs=191.2

Q ss_pred             cccccCCCccccCCCCccc--cCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCce
Q psy5595          26 KNFVSQEGERSFTPRDLIG--DSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNF  103 (293)
Q Consensus        26 ~~~~~~~p~~r~~p~e~l~--~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~  103 (293)
                      ++..|..|..|...+....  +.| -|+||++.|||||||.+|++||.+|||+|++.||+...+         ||  +..
T Consensus       137 ~~LTPlyP~erl~LE~~~~~~~ls-~RviDL~~PIGkGQR~LIVAPPkaGKT~lLq~IA~aIt~---------N~--Pe~  204 (422)
T COG1158         137 ENLTPLYPNERLKLERENGSTDLS-TRVIDLISPIGKGQRGLIVAPPKAGKTTLLQNIANAITT---------NH--PEC  204 (422)
T ss_pred             ccCCCCCCcceeeeecCCCcccch-hHHHhhhcccCCCceeeEecCCCCCchHHHHHHHHHHhc---------CC--Cce
Confidence            4445555555554442110  123 499999999999999999999999999999999999865         44  467


Q ss_pred             EEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         104 AIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       104 ~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                      +.++++|+||+||++++++.+       +..||+||+|+||..|.+++++.+..|.++.++ ||||++++||+||+|+||
T Consensus       205 ~LiVLLIDERPEEVTdmqrsV-------~geViaSTFDepp~~HvqVAE~viEkAKRlVE~-~kDVVILLDSITRLaRAY  276 (422)
T COG1158         205 ELIVLLIDERPEEVTDMQRSV-------KGEVVASTFDEPPSRHVQVAEMVIEKAKRLVEH-GKDVVILLDSITRLARAY  276 (422)
T ss_pred             EEEEEEecCCchHHHHHHHhh-------cceEEeecCCCcchhhHHHHHHHHHHHHHHHHc-CCcEEEEehhHHHHHHHh
Confidence            889999999999999999988       458999999999999999999999999999999 999999999999999999


Q ss_pred             HHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCC-cccccccc-------------ccCCC
Q psy5595         184 REVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDD-FKVSAARE-------------EVPGR  249 (293)
Q Consensus       184 reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d-~~dpi~~~-------------~la~~  249 (293)
                      |-+....|+..+ .|--+..++...+++..|++++ +|||+|+++|+++++|+ |+|.|++|             .|+++
T Consensus       277 N~v~P~SGkvLs-GGvD~nAL~~PKrFFGAARNIE-eGGSLTIiATALVdTGSrMDeVIfEEFKGTGNmEl~LdR~laer  354 (422)
T COG1158         277 NTVVPSSGKVLS-GGVDANALHRPKRFFGAARNIE-EGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAER  354 (422)
T ss_pred             cccCCCCCCeec-CCcChhhhcCchhhhhhhhccc-cCcchhhhhhhhhhcCCccchhhhhhhcCCCceEEEEhhhhhhc
Confidence            999999999887 4666777888899999999997 59999999999999999 88999986             89999


Q ss_pred             CCCCCcccccccchhh
Q psy5595         250 RGFPGYMYTNLATIYE  265 (293)
Q Consensus       250 r~~Pai~~~~~~s~~~  265 (293)
                      |+|||||..+|++|-|
T Consensus       355 RifPAIdi~kSGTRKE  370 (422)
T COG1158         355 RIFPAIDINKSGTRKE  370 (422)
T ss_pred             ccccceecccCCcchH
Confidence            9999999999999964

>KOG1353|consensus

Probab=99.77  E-value=1.2e-19  Score=166.05  Aligned_cols=148  Identities=20%  Similarity=0.214  Sum_probs=122.5

Q ss_pred             CccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCC--------CCceE
Q psy5595          33 GERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDS--------EDNFA  104 (293)
Q Consensus        33 p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~--------~~~~~  104 (293)
                      ..+|....||+  +||+|++|+++|||||||.+|+|+.-+|||.|             +.+|++||+        .++.+
T Consensus       121 ii~r~Sv~epm--qtg~KAvdslVpigRgqrELiIgdRqTGkTsl-------------a~dTI~nqk~~N~~~~ekkKiy  185 (340)
T KOG1353|consen  121 IIPRASVDEPM--QTGLKAVDSLVPIGRGQRELIIGDRQTGKTSL-------------AIDTILNQKRGNECLDEKKKIY  185 (340)
T ss_pred             cccceeeechh--hhhhhHhhceeeeccCceEEEeccccCCceee-------------eehhhhhhhhhcccccccceEE
Confidence            36778888899  99999999999999999999999966666554             455555554        24579


Q ss_pred             EEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHH
Q psy5595         105 IVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR  184 (293)
Q Consensus       105 ~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~r  184 (293)
                      |||++||++++.+..+.+.|.++++|+|+++|++|++                                           
T Consensus       186 CvyvaigqkrStvaqlv~~l~~~~a~~y~ivv~atas-------------------------------------------  222 (340)
T KOG1353|consen  186 CVYVAIGQKRSTVAQLVQRLEEADAMEYSIVVAATAS-------------------------------------------  222 (340)
T ss_pred             EEEEecccchhHHHHHHHHHHhcCCceEEEEEEeecc-------------------------------------------
Confidence            9999999999999999999999999999999999988                                           


Q ss_pred             HHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccccccccCCCCCCCCcccccccchh
Q psy5595         185 EVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAREEVPGRRGFPGYMYTNLATIY  264 (293)
Q Consensus       185 eisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~~~~la~~r~~Pai~~~~~~s~~  264 (293)
                                                                      .++|++.+||.+.|+. +++ .++.+.++-..
T Consensus       223 ------------------------------------------------q~gdvsayiptnvisi-dgq-i~l~t~lfy~g  252 (340)
T KOG1353|consen  223 ------------------------------------------------QAGDVSAYIPTNVISI-DGQ-IFLETELFYKG  252 (340)
T ss_pred             ------------------------------------------------cccceeeecccceeee-cch-hHHHHHHHHhc
Confidence                                                            6778888888888777 544 66777776555


Q ss_pred             hh----ccccccCCccccccceeecCCC
Q psy5595         265 ER----AGRVEGRNGSITQIPILTMPND  288 (293)
Q Consensus       265 ~r----~g~~~~~~Gs~~~~~~~~~~~~  288 (293)
                      .|    .|.+++|+||.+|..++....|
T Consensus       253 irpainvg~svsrvgsaaq~kamkqvag  280 (340)
T KOG1353|consen  253 IRPAINVGLSVSRVGSAAQTKAMKQVAG  280 (340)
T ss_pred             cchhheeeeEeeeccchHHHHHHHHHhh
Confidence            55    6788999999999988765544

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.08  E-value=5.2e-09  Score=86.37  Aligned_cols=143  Identities=26%  Similarity=0.420  Sum_probs=99.7

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDP  143 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~  143 (293)
                      ++|+|++|+|||+++.+++.+..+             .+..++|....+......+....+...+..++..++....+..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~-------------~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT-------------KGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDP   68 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh-------------cCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCC
Confidence            589999999999999999998853             2456778887776554433222333334445555555555554


Q ss_pred             hhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcc
Q psy5595         144 TIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGS  223 (293)
Q Consensus       144 ~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GS  223 (293)
                      ......      .++.++... .+..++|+|+++.+.+...+.         ..+++..+...+.+|++++.+     ..
T Consensus        69 ~~~~~~------~~~~~~~~~-~~~~~lviDe~~~~~~~~~~~---------~~~~~~~~~~~l~~l~~~~~~-----~~  127 (165)
T cd01120          69 AAARLL------SKAERLRER-GGDDLIILDELTRLVRALREI---------REGYPGELDEELRELLERARK-----GG  127 (165)
T ss_pred             cHHHHH------HHHHHHHhC-CCCEEEEEEcHHHHHHHHHHH---------HhcCChHHHHHHHHHHHHHhc-----CC
Confidence            333322      456667666 678899999999999876653         235677778888899888754     57


Q ss_pred             eeeeeEEEecCCCcccc
Q psy5595         224 ITQIPILTMPNDDFKVS  240 (293)
Q Consensus       224 iT~i~~v~~~~~d~~dp  240 (293)
                      +|.+.+...+.++..++
T Consensus       128 ~~vv~~~~~~~~~~~~~  144 (165)
T cd01120         128 VTVIFTLQVPSGDKGDP  144 (165)
T ss_pred             ceEEEEEecCCccccCc
Confidence            89999999887765544

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.

>KOG1351|consensus

Probab=98.76  E-value=2.7e-09  Score=100.56  Aligned_cols=63  Identities=73%  Similarity=1.135  Sum_probs=52.2

Q ss_pred             eEEEecCCCcccc-----ccccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         228 PILTMPNDDFKVS-----AAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       228 ~~v~~~~~d~~dp-----i~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      -+++++..+..|-     .+-|++|++|+||.|++++++++|||+|++..|.||+||+|.++||++|-
T Consensus       272 lviltdmssya~alrevsaareevpgrrg~pgymytdlatiyeragrvegr~gsitqipiltmpnddi  339 (489)
T KOG1351|consen  272 LVILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDI  339 (489)
T ss_pred             EEEEeccHHHHHHHHHHHHhhhhCCCcCCCCceehhhHHHHHHHhcccccCCCceeeeeeEecCCccc
Confidence            3455544443332     23369999999999999999999999999999999999999999999984

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=98.68  E-value=5.8e-09  Score=101.46  Aligned_cols=206  Identities=32%  Similarity=0.435  Sum_probs=115.8

Q ss_pred             eeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCC-cccc-CCCCCceEEEEEecCccc-hhHHHHHHhhhh
Q psy5595          50 RAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPG-KSVL-DDSEDNFAIVFAAMGVNM-ETARFFKQDFEE  126 (293)
Q Consensus        50 raID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~-~~~~-~~~~~~~~~V~~~iGer~-e~~~~~~~~l~~  126 (293)
                      +-||..=.|-..++.-|.|.|.=+-..+.-.---|++...|.+ +|+. .|+    .-||-+-|+-. +-+..+.+.-.-
T Consensus        97 ~PiDggp~i~~e~~~dI~g~~~NP~aR~yP~efIqTgIsaIDg~NtLvrgQK----lPIFSgSGlphN~LaaqIarQA~v  172 (463)
T COG1156          97 KPIDGGPEIVPEDRLDINGAPINPYARIYPEEFIQTGISAIDGMNTLVRGQK----LPIFSGSGLPHNELAAQIARQATV  172 (463)
T ss_pred             CcCCCCCcCCCCcccccCCCCCCchhhhChhhHhhcCccHHhhhhhhhcccc----cccccCCCCchHHHHHHHHHhccc
Confidence            6677777777788888999888776666554444555544433 2222 222    45788888764 444444443221


Q ss_pred             CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhh
Q psy5595         127 NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTN  206 (293)
Q Consensus       127 ~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~  206 (293)
                      .+-.+.-.+|++.+--           -..-|.+|++. ..       ...-+.++--=+ .+...|+..+=-.|.+--.
T Consensus       173 ~~~~e~favVfaamGi-----------t~eea~fF~~~-fe-------~tGal~r~vlfl-nlA~dp~vEri~tPr~aLt  232 (463)
T COG1156         173 DGEEEEFAVVFAAMGI-----------THEEALFFMDE-FE-------ETGALDRAVLFL-NLADDPAVERIITPRMALT  232 (463)
T ss_pred             CCCccceeEEEeecCc-----------cHHHHHHHHHH-HH-------hhhhhhhhHhhh-hccCCCceeEecchhHHHH
Confidence            1111222333333222           01235556543 11       111111111111 1222333333333333222


Q ss_pred             HHHHhhhhcccCCCCcceeeeeEEEecCCCccccc--------cccccCCCCCCCCcccccccchhhhccccccCCcccc
Q psy5595         207 LATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA--------AREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT  278 (293)
Q Consensus       207 la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi--------~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~  278 (293)
                      .+.-   -+ ++  ++     ..|++--.|||.+-        +-+++|++|+||.|++++++++|||||+++.+-||+|
T Consensus       233 ~AEy---lA-~e--~~-----~hVLVilTDMTnyceALREIsaareeVPgrRGYPGymYTdLatiYErAg~i~g~~GSiT  301 (463)
T COG1156         233 VAEY---LA-FE--KD-----MHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIRGRKGSIT  301 (463)
T ss_pred             HHHH---Hh-cc--CC-----ceEEEEEcchhHHHHHHHHHHhhhccCCCcCCCcchHHHHHHHHHHhhceeccCCCceE
Confidence            2211   11 22  22     24555556888763        3369999999999999999999999999999999999


Q ss_pred             ccceeecCCCCC
Q psy5595         279 QIPILTMPNDVG  290 (293)
Q Consensus       279 ~~~~~~~~~~~~  290 (293)
                      |+|+++||++|-
T Consensus       302 qipIlTMP~DDI  313 (463)
T COG1156         302 QIPILTMPGDDI  313 (463)
T ss_pred             EEEeeecCCCCc
Confidence            999999999984

>PRK08181 transposase; Validated

Probab=98.31  E-value=7.3e-07  Score=83.37  Aligned_cols=29  Identities=24%  Similarity=0.348  Sum_probs=26.4

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+++++.|+|++|+|||+|+..|++++.
T Consensus       103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~  131 (269)
T PRK08181        103 LAKGANLLLFGPPGGGKSHLAAAIGLALI  131 (269)
T ss_pred             HhcCceEEEEecCCCcHHHHHHHHHHHHH
Confidence            34899999999999999999999999874

>cd01394 radB RadB

Probab=98.26  E-value=7.3e-06  Score=72.89  Aligned_cols=115  Identities=16%  Similarity=0.185  Sum_probs=68.3

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc-hhHHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM-ETARFFKQ  122 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~-e~~~~~~~  122 (293)
                      .||+..+|-++.  +.+|.=..|+|+||+|||+|+.+++.+..+             .+..++|+-..+.. +....+.+
T Consensus         2 ~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~-------------~g~~v~yi~~e~~~~~~~~~~~~   68 (218)
T cd01394           2 PTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAG-------------QGKKVAYIDTEGLSSERFRQIAG   68 (218)
T ss_pred             CcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHh-------------cCCeEEEEECCCCCHHHHHHHHh
Confidence            699999999996  778999999999999999999999988753             23456666443222 22222222


Q ss_pred             hhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         123 DFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       123 ~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                      ... .....+ +++....+.  .++.    ..+...+.+...  +.-++|+|+++.+.++.
T Consensus        69 ~~~-~~~~~~-~~~~~~~~~--~~~~----~~~~~~~~~~~~--~~~lvvIDsi~~l~~~~  119 (218)
T cd01394          69 DRP-ERAASS-IIVFEPMDF--NEQG----RAIQETETFADE--KVDLVVVDSATALYRLE  119 (218)
T ss_pred             HCh-HhhhcC-EEEEeCCCH--HHHH----HHHHHHHHHHhc--CCcEEEEechHHhhhHH
Confidence            110 111223 344443332  2221    112222233333  35689999999986543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

Probab=98.23  E-value=4.4e-07  Score=90.79  Aligned_cols=46  Identities=48%  Similarity=0.771  Sum_probs=42.8

Q ss_pred             ccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         245 EVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       245 ~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      ++|...+||||+.++++.||||+|+++     +|.||+|++++||||+||=
T Consensus       346 EmPgeegyPaYL~srlA~fYERaG~v~~~~~~~r~GsvtV~gaVSPpGGdf  396 (588)
T COG1155         346 EMPGEEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSITVIGAVSPPGGDF  396 (588)
T ss_pred             cCCcccccchHHHHHHHHHHHhcCeeeecCCCcceEEEEEecCCCCCCCCc
Confidence            677778999999999999999999888     8899999999999999983

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.22  E-value=2.4e-06  Score=67.18  Aligned_cols=99  Identities=21%  Similarity=0.200  Sum_probs=57.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeC
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNL  139 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~st  139 (293)
                      ++++++|+||+|+|||+++..|+++..+.             ...++++.+....+.......            .....
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~------------~~~~~   55 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELGPP-------------GGGVIYIDGEDILEEVLDQLL------------LIIVG   55 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccCCC-------------CCCEEEECCEEccccCHHHHH------------hhhhh
Confidence            47899999999999999999999988531             112444444433222211111            00111


Q ss_pred             CCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhh
Q psy5595         140 ANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSA  188 (293)
Q Consensus       140 sd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl  188 (293)
                      .+.....+.......++.|++.     +..++++|++.++.........
T Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~-----~~~viiiDei~~~~~~~~~~~~   99 (148)
T smart00382       56 GKKASGSGELRLRLALALARKL-----KPDVLILDEITSLLDAEQEALL   99 (148)
T ss_pred             ccCCCCCHHHHHHHHHHHHHhc-----CCCEEEEECCcccCCHHHHHHH
Confidence            1222233344444444444332     3589999999998877766544

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.

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

Probab=98.21  E-value=2.5e-06  Score=79.03  Aligned_cols=96  Identities=18%  Similarity=0.240  Sum_probs=66.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeC
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNL  139 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~st  139 (293)
                      +|-.+.+.|++|+|||+|+..|++.+.+                                       .|   .+|+|+.+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~---------------------------------------~g---~sv~f~~~  141 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLK---------------------------------------AG---ISVLFITA  141 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHH---------------------------------------cC---CeEEEEEH
Confidence            8999999999999999999999998842                                       12   44555555


Q ss_pred             CCCchhhhhchHHHHHHHHHHHHH-hcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhh
Q psy5595         140 ANDPTIERIITPRLALTTAEFLAY-QCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERA  214 (293)
Q Consensus       140 sd~~~~~r~~a~~~a~tiAEyfr~-~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERa  214 (293)
                      .+.  +.++..++-.-+..+.+-. . .+--|||+||+........+-+.              +|..+.+.|||.
T Consensus       142 ~el--~~~Lk~~~~~~~~~~~l~~~l-~~~dlLIiDDlG~~~~~~~~~~~--------------~~q~I~~r~~~~  200 (254)
T COG1484         142 PDL--LSKLKAAFDEGRLEEKLLREL-KKVDLLIIDDIGYEPFSQEEADL--------------LFQLISRRYESR  200 (254)
T ss_pred             HHH--HHHHHHHHhcCchHHHHHHHh-hcCCEEEEecccCccCCHHHHHH--------------HHHHHHHHHhhc
Confidence            555  5555555544333333333 4 56668889999886666555554              788888888754

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=98.20  E-value=3.3e-05  Score=70.94  Aligned_cols=121  Identities=14%  Similarity=0.147  Sum_probs=82.4

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHH-
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQ-  122 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~-  122 (293)
                      .|||.-+|-++-  +-+|..++|.|+||+|||.++.+.+.+..+             .+.-|+|+...|.+++...... 
T Consensus         6 ~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~-------------~ge~vlyvs~~e~~~~l~~~~~~   72 (260)
T COG0467           6 PTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAR-------------EGEPVLYVSTEESPEELLENARS   72 (260)
T ss_pred             cCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHh-------------cCCcEEEEEecCCHHHHHHHHHH
Confidence            799999999999  889999999999999999999999988764             2457999999999877755443 


Q ss_pred             ------hhhhCCccccEEEEeeCCCCchh---h--hhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         123 ------DFEENGSMENVCLFLNLANDPTI---E--RIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       123 ------~l~~~g~~~~tvvv~stsd~~~~---~--r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                            .+.+.+.+  .++-..+...+..   .  -.......-.+-+...+. + ...+++||++.+....
T Consensus        73 ~g~d~~~~~~~g~l--~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~-~-~~~~ViDsi~~~~~~~  140 (260)
T COG0467          73 FGWDLEVYIEKGKL--AILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKE-G-ADRVVIDSITELTLYL  140 (260)
T ss_pred             cCCCHHHHhhcCCE--EEEEccccccccccccccCCccHHHHHHHHHHHHHHh-C-CCEEEEeCCchHhhhc
Confidence                  23344421  1221222222111   1  122344555666777765 4 6788899999755444

>PRK09183 transposase/IS protein; Provisional

Probab=98.19  E-value=1.9e-06  Score=79.86  Aligned_cols=35  Identities=17%  Similarity=0.377  Sum_probs=29.1

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++.+.-+.+|+.++|+||+|+|||+|+..|++.+
T Consensus        92 ~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183         92 SLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             HHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            33333338899999999999999999999998876

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=98.17  E-value=1.6e-05  Score=71.27  Aligned_cols=150  Identities=15%  Similarity=0.168  Sum_probs=87.0

Q ss_pred             CCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCC-ceEEEEEecCccchhHHHHHH
Q psy5595          46 SSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSED-NFAIVFAAMGVNMETARFFKQ  122 (293)
Q Consensus        46 ~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~-~~~~V~~~iGer~e~~~~~~~  122 (293)
                      .|||.-+|-++  -+-+|.-++|.|+||+|||+|+.+++.+..+             . +..|+|+..-+..+++..-.+
T Consensus         2 ~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~-------------~~ge~vlyvs~ee~~~~l~~~~~   68 (226)
T PF06745_consen    2 PTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLK-------------NFGEKVLYVSFEEPPEELIENMK   68 (226)
T ss_dssp             --SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-------------HHT--EEEEESSS-HHHHHHHHH
T ss_pred             CCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhh-------------hcCCcEEEEEecCCHHHHHHHHH
Confidence            59999999999  7889999999999999999999998876643             2 357899998887654433222


Q ss_pred             hh-------hhCCccccEEEEeeCCCCchh-hhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCC
Q psy5595         123 DF-------EENGSMENVCLFLNLANDPTI-ERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVP  194 (293)
Q Consensus       123 ~l-------~~~g~~~~tvvv~stsd~~~~-~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p  194 (293)
                      .+       .+.|   +- .+......... .....-...-.+.+.+.+. + ...+++||++-+ ..+..         
T Consensus        69 s~g~d~~~~~~~g---~l-~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~-~-~~~vVIDsls~l-~~~~~---------  132 (226)
T PF06745_consen   69 SFGWDLEEYEDSG---KL-KIIDAFPERIGWSPNDLEELLSKIREAIEEL-K-PDRVVIDSLSAL-LLYDD---------  132 (226)
T ss_dssp             TTTS-HHHHHHTT---SE-EEEESSGGGST-TSCCHHHHHHHHHHHHHHH-T-SSEEEEETHHHH-TTSSS---------
T ss_pred             HcCCcHHHHhhcC---CE-EEEecccccccccccCHHHHHHHHHHHHHhc-C-CCEEEEECHHHH-hhcCC---------
Confidence            22       2222   22 33333222110 0112233344556666665 3 378899999987 22111         


Q ss_pred             CCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecC
Q psy5595         195 GRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPN  234 (293)
Q Consensus       195 ~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~  234 (293)
                           |..+...+-.++....+    .| +|.+.+..++.
T Consensus       133 -----~~~~r~~l~~l~~~l~~----~~-~t~llt~~~~~  162 (226)
T PF06745_consen  133 -----PEELRRFLRALIKFLKS----RG-VTTLLTSEMPS  162 (226)
T ss_dssp             -----GGGHHHHHHHHHHHHHH----TT-EEEEEEEEESS
T ss_pred             -----HHHHHHHHHHHHHHHHH----CC-CEEEEEEcccc
Confidence                 11123344555555543    23 46677777643

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 ....

>KOG1352|consensus

Probab=98.16  E-value=5.5e-07  Score=87.76  Aligned_cols=46  Identities=39%  Similarity=0.741  Sum_probs=42.8

Q ss_pred             ccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         245 EVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       245 ~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      ++|..-+||||+-+++++||||||+++     .|.|||++.++||||+||-
T Consensus       369 EMPADsGyPAYLgArLAsFYERAG~vkcLGsP~ReGsVsIVgAVSPpGGDF  419 (618)
T KOG1352|consen  369 EMPADSGYPAYLGARLASFYERAGRVKCLGSPDREGSVSIVGAVSPPGGDF  419 (618)
T ss_pred             cCcCcCCCcHHHHHHHHHHHHhcCceeecCCCCcCceeEEEEeecCCCCCc
Confidence            566677999999999999999999998     9999999999999999984

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

Probab=98.16  E-value=1.1e-06  Score=77.13  Aligned_cols=29  Identities=21%  Similarity=0.429  Sum_probs=24.3

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+|+.+.|+|++|+|||+|+..|++.+.
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~   72 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAI   72 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhc
Confidence            56899999999999999999999999874

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.

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=98.11  E-value=1.1e-06  Score=89.90  Aligned_cols=95  Identities=37%  Similarity=0.528  Sum_probs=68.1

Q ss_pred             EEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccccc-------
Q psy5595         171 VILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAR-------  243 (293)
Q Consensus       171 li~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~~-------  243 (293)
                      +++=+.+...-+.||.|.               |..+ .+-|-=+   +.|      .-|++-.||++-..-.       
T Consensus       292 vlVanTSn~Pv~aR~~s~---------------ytgi-TiAEYfR---d~G------~~Vllm~DStSR~AeAlREIS~~  346 (586)
T PRK04192        292 VLIANTSNMPVAAREASI---------------YTGI-TIAEYYR---DMG------YDVLLMADSTSRWAEALREISGR  346 (586)
T ss_pred             EEEEECCCCCHHHHHHHH---------------HHHH-HHHHHHH---HCC------CCEEEEecChHHHHHHHHHHHHh
Confidence            344477777778888775               3222 1222111   223      2355557777654332       


Q ss_pred             -cccCCCCCCCCcccccccchhhhccccc---cCCccccccceeecCCCCC
Q psy5595         244 -EEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       244 -~~la~~r~~Pai~~~~~~s~~~r~g~~~---~~~Gs~~~~~~~~~~~~~~  290 (293)
                       +++|.+++||+|++++++++|||||++.   ++.||+|++++|+||+||=
T Consensus       347 l~E~P~~eGYP~yL~S~La~~yERAG~v~~~~~~~GSIT~i~aVs~pggD~  397 (586)
T PRK04192        347 LEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEEGSVTIIGAVSPPGGDF  397 (586)
T ss_pred             cCCCCccCCcCccHHHHHHHHHHhhcccccCCCCCcceEEEEEEECCCCCC
Confidence             4999999999999999999999999997   4699999999999999984

>TIGR02012 tigrfam_recA protein RecA

Probab=98.03  E-value=2e-05  Score=75.59  Aligned_cols=111  Identities=18%  Similarity=0.275  Sum_probs=74.2

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      -+.+  .||+..+|.++.   +-+|.-+.|+|++|+|||+|+.+++.++.+             .+..|+|+-.-+..+.
T Consensus        33 ~~~i--~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~-------------~g~~v~yId~E~~~~~   97 (321)
T TIGR02012        33 VETI--STGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQK-------------AGGTAAFIDAEHALDP   97 (321)
T ss_pred             Ccee--cCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCcEEEEcccchhHH
Confidence            3456  899999999998   779999999999999999999999888754             2346777744333322


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                       . .   +..-|+ +++ .+ +...+.  .++      ++.+.+.+... +.-.+||+||++-+..
T Consensus        98 -~-~---a~~lGvd~~~-l~-v~~p~~--~eq------~l~~~~~li~~-~~~~lIVIDSv~al~~  147 (321)
T TIGR02012        98 -V-Y---ARKLGVDIDN-LL-VSQPDT--GEQ------ALEIAETLVRS-GAVDIIVVDSVAALVP  147 (321)
T ss_pred             -H-H---HHHcCCCHHH-eE-EecCCC--HHH------HHHHHHHHhhc-cCCcEEEEcchhhhcc
Confidence             1 1   122232 222 22 333332  333      35566666655 6778999999998764

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.

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=98.01  E-value=2.1e-06  Score=83.12  Aligned_cols=61  Identities=39%  Similarity=0.671  Sum_probs=51.5

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++-.||++-..-.        +++|.+++||++..++++++|||+|++.     .+.||+|++++|++|+||-
T Consensus       256 Vll~~Ds~tR~A~A~REIs~~l~E~P~~~GYP~yl~s~La~~yERAG~~~~~~~~~~~GSIT~i~~V~~~g~D~  329 (369)
T cd01134         256 VALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIVGAVSPPGGDF  329 (369)
T ss_pred             EEEEEcChhHHHHHHHHHHHhcCCCCCccCcCccHHHHHHHHHHhcccccccCCCCCCccEEEEEEEEccCCCc
Confidence            44446777654332        4999999999999999999999999987     6789999999999999984

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=98.01  E-value=5.4e-05  Score=67.37  Aligned_cols=41  Identities=27%  Similarity=0.443  Sum_probs=37.7

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++-  +-+|+-..|.|++|+|||+|+.+++.++.
T Consensus         2 ~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~   44 (226)
T cd01393           2 STGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQ   44 (226)
T ss_pred             CCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhh
Confidence            699999999874  88999999999999999999999998874

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.

>PRK06526 transposase; Provisional

Probab=97.99  E-value=5.2e-06  Score=76.95  Aligned_cols=28  Identities=11%  Similarity=0.183  Sum_probs=25.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+++++.|.||+|+|||+|+..|++++.
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~  123 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRAC  123 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHH
Confidence            4789999999999999999999999874

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.99  E-value=6.9e-05  Score=67.08  Aligned_cols=122  Identities=16%  Similarity=0.182  Sum_probs=69.9

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--chhHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--METARFFK  121 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e~~~~~~  121 (293)
                      .||++.+|-++.  +.+|....|.|++|+|||+|+.+++.+....   + .   .......++|+...+.  .+...++.
T Consensus         2 ~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~---~-~---~~g~~~~viyi~~e~~~~~~rl~~~~   74 (235)
T cd01123           2 TTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLP---I-E---LGGLEGKAVYIDTEGTFRPERLVQIA   74 (235)
T ss_pred             CCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCc---c-c---cCCCCccEEEEeCCCCcCHHHHHHHH
Confidence            699999999986  8899999999999999999999998765320   0 0   0001245777665443  23333322


Q ss_pred             Hhh--hhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         122 QDF--EENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       122 ~~l--~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                      +.+  ....++++..++ ...+.   .++....  ..+-+.+... ++--+||+||++.+.+
T Consensus        75 ~~~~~~~~~~~~~i~~~-~~~~~---~~l~~~l--~~l~~~l~~~-~~~~liVIDSis~~~~  129 (235)
T cd01123          75 ERFGLDPEEVLDNIYVA-RAYNS---DHQLQLL--EELEAILIES-SRIKLVIVDSVTALFR  129 (235)
T ss_pred             HHhccChHhHhcCEEEE-ecCCH---HHHHHHH--HHHHHHHhhc-CCeeEEEEeCcHHHHH
Confidence            211  112234443333 22221   1211111  1222333332 3778999999998754

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 .

>PRK09354 recA recombinase A; Provisional

Probab=97.99  E-value=2.3e-05  Score=75.92  Aligned_cols=112  Identities=18%  Similarity=0.298  Sum_probs=77.3

Q ss_pred             CCCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch
Q psy5595          39 PRDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME  115 (293)
Q Consensus        39 p~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e  115 (293)
                      ..+.+  .||+..+|.++.   +-+|.=..|+|++|+|||+|+.+++.++.+             .+..|+|+-.=+..+
T Consensus        37 ~~~~i--sTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~-------------~G~~~~yId~E~s~~  101 (349)
T PRK09354         37 DVEVI--STGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK-------------AGGTAAFIDAEHALD  101 (349)
T ss_pred             CCcee--cCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCcEEEECCccchH
Confidence            34566  899999999998   667888999999999999999999988754             245778876655444


Q ss_pred             hHHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         116 TARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       116 ~~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                      . .++    ..-|+ +++  ++.++.+.  .++      ++.+.+.+... +.-.+||+||++-+..
T Consensus       102 ~-~~a----~~lGvdld~--lli~qp~~--~Eq------~l~i~~~li~s-~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        102 P-VYA----KKLGVDIDN--LLVSQPDT--GEQ------ALEIADTLVRS-GAVDLIVVDSVAALVP  152 (349)
T ss_pred             H-HHH----HHcCCCHHH--eEEecCCC--HHH------HHHHHHHHhhc-CCCCEEEEeChhhhcc
Confidence            3 221    22232 233  22333332  333      45667777666 7888999999998764

>PRK04328 hypothetical protein; Provisional

Probab=97.98  E-value=4.9e-05  Score=69.86  Aligned_cols=59  Identities=12%  Similarity=0.064  Sum_probs=49.7

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      .|||.-+|-++.  +-+|.-++|.|+||+|||+|+.+++.+..+             .+..|+|+...|.++..
T Consensus         6 ~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~-------------~ge~~lyis~ee~~~~i   66 (249)
T PRK04328          6 KTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ-------------MGEPGVYVALEEHPVQV   66 (249)
T ss_pred             cCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEEeeCCHHHH
Confidence            799999999976  558999999999999999999998877543             24578999999887654

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.98  E-value=2e-05  Score=75.72  Aligned_cols=111  Identities=15%  Similarity=0.264  Sum_probs=75.3

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||+..+|.++.   +-+|.=..|+|++|+|||+|+.+++.++.+             .+..|+|+-.=+..+.
T Consensus        33 ~~~i--sTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~-------------~g~~~vyId~E~~~~~   97 (325)
T cd00983          33 VEVI--PTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQK-------------LGGTVAFIDAEHALDP   97 (325)
T ss_pred             Ccee--cCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCCEEEECccccHHH
Confidence            3456  899999999998   668889999999999999999999988754             2346777765443332


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                       .+    +..-|+ +++  +++...+.  .      .-++.+++.+... +.-.+||+||++-+..
T Consensus        98 -~~----a~~lGvd~~~--l~v~~p~~--~------eq~l~i~~~li~s-~~~~lIVIDSvaal~~  147 (325)
T cd00983          98 -VY----AKKLGVDLDN--LLISQPDT--G------EQALEIADSLVRS-GAVDLIVVDSVAALVP  147 (325)
T ss_pred             -HH----HHHcCCCHHH--heecCCCC--H------HHHHHHHHHHHhc-cCCCEEEEcchHhhcc
Confidence             11    122232 223  22333332  2      2345666777666 7788999999998764

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.98  E-value=0.0001  Score=65.88  Aligned_cols=46  Identities=20%  Similarity=0.369  Sum_probs=40.1

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++.+  .||+.-+|-++  -+-+|.-..|.|+||+|||+|+.+++.+..+
T Consensus         2 ~~~i--~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~   49 (225)
T PRK09361          2 DERL--PTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK   49 (225)
T ss_pred             Cccc--cCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3456  89999999999  5678999999999999999999999987753

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=97.93  E-value=3.7e-06  Score=85.84  Aligned_cols=95  Identities=33%  Similarity=0.465  Sum_probs=67.7

Q ss_pred             EEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccccc-------
Q psy5595         171 VILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAAR-------  243 (293)
Q Consensus       171 li~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~~-------  243 (293)
                      +++=+.+...-+.|+.|..             .-..+|.-|      .+.|-      -|++-.||++-..-.       
T Consensus       287 vlVanTSn~p~~aR~~s~y-------------tg~TiAEYf------RD~G~------~Vllm~DS~sR~AeAlREIs~~  341 (578)
T TIGR01043       287 VLIANTSNMPVAAREASIY-------------TGITIAEYF------RDMGY------DVALMADSTSRWAEAMREISGR  341 (578)
T ss_pred             EEEEECCCCCHHHHHHHHH-------------HHHHHHHHH------HHCCC------CEEEEecChhHHHHHHHHHHHh
Confidence            3444777778888887752             111222222      12232      345556777654322       


Q ss_pred             -cccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         244 -EEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       244 -~~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                       +++|.+++||+|.++++.++|||||++.     .|.||+|.+++|++|+||-
T Consensus       342 lgE~P~~eGYP~yl~SrLa~~yERAG~~~~~~~~~r~GSIT~i~aVs~~ggD~  394 (578)
T TIGR01043       342 LEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVIGAVSPPGGDF  394 (578)
T ss_pred             cCCCCCCCCcCccHHHHHHHHHHhhccccccCCCCCCccEeEEEEEECCCCCC
Confidence             4999999999999999999999999995     5689999999999999984

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.92  E-value=8.6e-05  Score=66.48  Aligned_cols=58  Identities=16%  Similarity=0.247  Sum_probs=46.4

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .|||.-+|-++.  +-+|..++|.|+||+|||+|+.+++.+..+             .+..++|+...+..+.
T Consensus         3 ~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~-------------~g~~~~~is~e~~~~~   62 (229)
T TIGR03881         3 STGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLR-------------DGDPVIYVTTEESRES   62 (229)
T ss_pred             CCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHh-------------cCCeEEEEEccCCHHH
Confidence            799999999875  679999999999999999999998876532             1335777777665543

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.90  E-value=0.00011  Score=67.91  Aligned_cols=117  Identities=14%  Similarity=0.168  Sum_probs=67.7

Q ss_pred             CCCceeeeecc----------------cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEe
Q psy5595          46 SSGKRAIDVMN----------------SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAA  109 (293)
Q Consensus        46 ~TGiraID~l~----------------pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~  109 (293)
                      .|||.-+|-++                =+-+|.-.+|.|+||+|||+|+.+++.+..+             .+..++|+.
T Consensus         5 ~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~-------------~Ge~vlyis   71 (259)
T TIGR03878         5 PTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQAS-------------RGNPVLFVT   71 (259)
T ss_pred             cCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHh-------------CCCcEEEEE
Confidence            79999999986                3569999999999999999999999887643             133567776


Q ss_pred             cCccchhH-HHHHHhhhhCCc-----cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH
Q psy5595         110 MGVNMETA-RFFKQDFEENGS-----MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY  179 (293)
Q Consensus       110 iGer~e~~-~~~~~~l~~~g~-----~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~  179 (293)
                      .-+..+.. ..+.+.....|.     .++ +++......... + ..+..-+....+...+ .+--++|+||++.+
T Consensus        72 ~Ee~~~~~~~~l~~~a~~~g~d~~~~~~~-l~~id~~~~~~~-~-~~~~~l~~~l~~~i~~-~~~~~vVIDSls~l  143 (259)
T TIGR03878        72 VESPANFVYTSLKERAKAMGVDFDKIEEN-IILIDAASSTEL-R-ENVPNLLATLAYAIKE-YKVKNTVIDSITGL  143 (259)
T ss_pred             ecCCchHHHHHHHHHHHHcCCCHHHHhCC-EEEEECCCchhh-h-hhHHHHHHHHHHHHHh-hCCCEEEEcCchHh
Confidence            65433221 223222222221     223 444433322111 1 1222222333334444 34558899999854

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.87  E-value=6.6e-05  Score=70.77  Aligned_cols=123  Identities=14%  Similarity=0.180  Sum_probs=74.3

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--chhHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--METARFFK  121 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e~~~~~~  121 (293)
                      .||++.+|.++-  +-+|.-..|+|+||+|||+|+.+++.++....       .....+..+||+-.-+.  ++...++.
T Consensus        78 ~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~-------~~g~~~~~~~yi~te~~f~~~rl~~~~  150 (310)
T TIGR02236        78 TTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPE-------EKGGLGGKAVYIDTENTFRPERIMQMA  150 (310)
T ss_pred             cCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCc-------ccCCCcceEEEEECCCCCCHHHHHHHH
Confidence            799999999987  77899999999999999999999998874210       00011347899988773  44444333


Q ss_pred             Hhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcC-CceEEEecchhHHHHH
Q psy5595         122 QDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE-KHVLVILTDMSSYAEA  182 (293)
Q Consensus       122 ~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G-~~VLli~Dsltr~a~A  182 (293)
                      +.+.  ....+++..+ +...+..  .++   ...-.+.+.+.+. + ..-+||+||++-+-+.
T Consensus       151 ~~~gl~~~~~~~~i~i-~~~~~~~--~~~---~lld~l~~~i~~~-~~~~~lVVIDSisa~~r~  207 (310)
T TIGR02236       151 EARGLDPDEVLKNIYV-ARAYNSN--HQM---LLVEKAEDLIKEL-NNPVKLLIVDSLTSHFRA  207 (310)
T ss_pred             HHcCCCHHHHhhceEE-EecCCHH--HHH---HHHHHHHHHHHhc-CCCceEEEEecchHhhhH
Confidence            3221  0112334333 3322221  111   1122355666553 3 2449999999987543

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.87  E-value=0.00012  Score=66.51  Aligned_cols=59  Identities=10%  Similarity=0.072  Sum_probs=49.1

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      .|||.-+|-++.  +-+|.-++|.|+||+|||+|+.+++.+..+             .+..|+|+...|.+++.
T Consensus         4 ~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~-------------~ge~~lyvs~ee~~~~i   64 (237)
T TIGR03877         4 KTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ-------------MGEPGIYVALEEHPVQV   64 (237)
T ss_pred             ccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHH-------------cCCcEEEEEeeCCHHHH
Confidence            799999999875  779999999999999999999998877533             24578999988876543

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=97.80  E-value=0.00014  Score=65.57  Aligned_cols=61  Identities=16%  Similarity=0.126  Sum_probs=49.3

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      +.+  .|||.-+|-++.  +-+|.-++|.|++|+|||+|+.+++.+..+             .+..|+|+..-+..++
T Consensus         5 ~~~--~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~-------------~g~~~~y~~~e~~~~~   67 (234)
T PRK06067          5 EII--STGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALK-------------QGKKVYVITTENTSKS   67 (234)
T ss_pred             eEE--ecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHh-------------CCCEEEEEEcCCCHHH
Confidence            346  899999999985  679999999999999999999999877543             2457888888766543

>PRK12377 putative replication protein; Provisional

Probab=97.75  E-value=5.5e-05  Score=70.04  Aligned_cols=26  Identities=19%  Similarity=0.138  Sum_probs=23.3

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+.|.|++|+|||+|+..|++...
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~  126 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLL  126 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35789999999999999999999874

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.74  E-value=0.0003  Score=62.04  Aligned_cols=103  Identities=16%  Similarity=0.232  Sum_probs=59.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc-cchhHHHHHHhhhhCCccccEEEE
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV-NMETARFFKQDFEENGSMENVCLF  136 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe-r~e~~~~~~~~l~~~g~~~~tvvv  136 (293)
                      +-+|+=..|.|+||+|||+|+.+++.+..+             .+..++|+-.-+ .++....+.+...+ ..+++ +++
T Consensus         9 i~~g~i~~i~G~~GsGKT~l~~~~~~~~~~-------------~g~~v~yi~~e~~~~~rl~~~~~~~~~-~~~~~-i~~   73 (209)
T TIGR02237         9 VERGTITQIYGPPGSGKTNICMILAVNAAR-------------QGKKVVYIDTEGLSPERFKQIAEDRPE-RALSN-FIV   73 (209)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHh-------------CCCeEEEEECCCCCHHHHHHHHHhChH-HHhcC-EEE
Confidence            457999999999999999999999988753             234678887754 44433333222111 11234 333


Q ss_pred             eeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         137 LNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       137 ~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      +...+  +.+..   .....+.+.+.+  ++--+||+||++.+.++
T Consensus        74 ~~~~~--~~~~~---~~~~~l~~~~~~--~~~~lvVIDSis~l~~~  112 (209)
T TIGR02237        74 FEVFD--FDEQG---VAIQKTSKFIDR--DSASLVVVDSFTALYRL  112 (209)
T ss_pred             EECCC--HHHHH---HHHHHHHHHHhh--cCccEEEEeCcHHHhHH
Confidence            33322  12211   112223344433  34458899999988654

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=97.72  E-value=1.5e-05  Score=81.45  Aligned_cols=61  Identities=34%  Similarity=0.570  Sum_probs=50.2

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++-.||.+--.-        -+++|.+++||++..+++..+|||+|++.     .+.||+|.+++|++++||-
T Consensus       327 Vll~~DS~tR~AeAlREIsl~lgE~P~~eGYPayl~SrLa~l~ERAG~~~~~~~~~~~GSIT~i~aVs~~ggD~  400 (591)
T TIGR01042       327 VSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPEREGSVSIVGAVSPPGGDF  400 (591)
T ss_pred             EEEEecChHHHHHHHHHHHhccCCCCCCCCcCccHHHHHHHHHHhccCCccCCCCCCCccEEEEEEEECCCCCC
Confidence            4444566654322        14899999999999999999999999986     5689999999999999984

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.69  E-value=0.00034  Score=67.80  Aligned_cols=126  Identities=15%  Similarity=0.157  Sum_probs=76.8

Q ss_pred             CCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc--cch
Q psy5595          40 RDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV--NME  115 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe--r~e  115 (293)
                      ...+  .||++.+|-++-  |-+|.=..|+|++|+|||+|+.+++-++..-.       ++...+..++|+-.-+  +++
T Consensus       105 ~~~i--sTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~-------~~gg~~~~vvyIdTE~tF~pe  175 (344)
T PLN03187        105 VVRI--TTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPT-------EMGGGNGKVAYIDTEGTFRPD  175 (344)
T ss_pred             Ccee--cCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcch-------hhCCCCceEEEEEcCCCCCHH
Confidence            3446  899999999987  66899999999999999999999987664200       0111235788887766  456


Q ss_pred             hHHHHHHhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         116 TARFFKQDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       116 ~~~~~~~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      ....+-+.+.  ...++++ +.+. .... ..++...   -..+.+.+.+  .+--|||+||++-+-++
T Consensus       176 Rl~~ia~~~g~d~~~~l~~-I~~~-~~~~-~e~~~~~---l~~l~~~i~~--~~~~LvVIDSital~r~  236 (344)
T PLN03187        176 RIVPIAERFGMDADAVLDN-IIYA-RAYT-YEHQYNL---LLGLAAKMAE--EPFRLLIVDSVIALFRV  236 (344)
T ss_pred             HHHHHHHHcCCChhhhcCe-EEEe-cCCC-HHHHHHH---HHHHHHHHHh--cCCCEEEEeCcHHhhhc
Confidence            6555544332  1223444 2222 2222 1222211   1223334443  45668999999987553

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=97.68  E-value=0.00082  Score=61.57  Aligned_cols=45  Identities=7%  Similarity=0.112  Sum_probs=38.9

Q ss_pred             CCccccCCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          40 RDLIGDSSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++-+  .||+..+|-++ -+.+|+-.+|.|++|+|||+++.+++.+..
T Consensus        10 ~~~~--~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~   55 (271)
T cd01122          10 NEEV--WWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLI   55 (271)
T ss_pred             ccCC--CCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3445  89999999975 477899999999999999999999998874

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.68  E-value=0.00029  Score=70.99  Aligned_cols=63  Identities=22%  Similarity=0.207  Sum_probs=51.0

Q ss_pred             CCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          40 RDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      .+.+  .|||..+|-++.  +-+|.-++|.|++|+|||+|+.+++.+..+             .+..++|+..-+..+..
T Consensus       252 ~~~~--~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~-------------~g~~~~yis~e~~~~~i  316 (509)
T PRK09302        252 NERI--SSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACR-------------RGERCLLFAFEESRAQL  316 (509)
T ss_pred             cccc--cCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHh-------------CCCcEEEEEecCCHHHH
Confidence            3456  899999999986  889999999999999999999999987753             23467787776665543

>TIGR00416 sms DNA repair protein RadA

Probab=97.59  E-value=0.00019  Score=71.79  Aligned_cols=41  Identities=27%  Similarity=0.292  Sum_probs=38.3

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+.-+|-++.  +-+|+-++|.|+||+|||+|+.+++.+..
T Consensus        77 ~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a  119 (454)
T TIGR00416        77 SSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA  119 (454)
T ss_pred             ccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            899999999984  88999999999999999999999988875

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.57  E-value=0.00026  Score=75.03  Aligned_cols=112  Identities=18%  Similarity=0.242  Sum_probs=74.0

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||+..+|.++.   +-+|.-..|+|++|+|||+|+.+++.++.+             .+..|+|+---+..+.
T Consensus        38 v~~i--sTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~-------------~G~~v~yId~E~t~~~  102 (790)
T PRK09519         38 ISVI--PTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA-------------AGGVAAFIDAEHALDP  102 (790)
T ss_pred             Ccee--cCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCcEEEECCccchhH
Confidence            3456  899999999997   678999999999999999999988777643             2346777765554331


Q ss_pred             HHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         117 ARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       117 ~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                       +    ....-|+--..++ +...+.  .++      .+.+++.+..+ ++--|||+||++-+..
T Consensus       103 -~----~A~~lGvDl~~ll-v~~~~~--~E~------~l~~i~~lv~~-~~~~LVVIDSI~aL~~  152 (790)
T PRK09519        103 -D----YAKKLGVDTDSLL-VSQPDT--GEQ------ALEIADMLIRS-GALDIVVIDSVAALVP  152 (790)
T ss_pred             -H----HHHHcCCChhHeE-EecCCC--HHH------HHHHHHHHhhc-CCCeEEEEcchhhhcc
Confidence             1    1222232111222 333332  233      44556666555 7888999999997763

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.56  E-value=0.00037  Score=66.17  Aligned_cols=127  Identities=16%  Similarity=0.207  Sum_probs=74.8

Q ss_pred             CCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--ch
Q psy5595          40 RDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--ME  115 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e  115 (293)
                      ...+  .||+.-+|-++.  +-+|.-..|+|++|+|||+|+.+++.++....       .+...+..++|+-.-+.  ++
T Consensus        81 ~~~~--~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~-------~~gg~~~~~~yi~te~~f~~~  151 (317)
T PRK04301         81 VGKI--TTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPE-------EKGGLEGKAVYIDTEGTFRPE  151 (317)
T ss_pred             CCcc--CCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhcccc-------ccCCCCceEEEEeCCCCcCHH
Confidence            3445  799999999876  77899999999999999999999998874210       00012347888888773  44


Q ss_pred             hHHHHHHhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         116 TARFFKQDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       116 ~~~~~~~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      ...++.+.+.  ...++++.. ++...+.  .++..   ..-.+.+.+.+. .+--|||+||++-+-+.
T Consensus       152 rl~~~~~~~g~~~~~~l~~i~-~~~~~~~--~~~~~---~~~~l~~~i~~~-~~~~lvVIDSisa~~~~  213 (317)
T PRK04301        152 RIEQMAEALGLDPDEVLDNIH-VARAYNS--DHQML---LAEKAEELIKEG-ENIKLVIVDSLTAHFRA  213 (317)
T ss_pred             HHHHHHHHcCCChHhhhccEE-EEeCCCH--HHHHH---HHHHHHHHHhcc-CceeEEEEECchHHhhh
Confidence            4444433221  112234422 2322211  22211   112233333331 24459999999987544

>PRK06921 hypothetical protein; Provisional

Probab=97.53  E-value=0.00022  Score=66.43  Aligned_cols=27  Identities=11%  Similarity=0.217  Sum_probs=24.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..+.+.|++|+|||+|+..|++++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~  142 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM  142 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh
Confidence            578899999999999999999999874

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.51  E-value=0.00042  Score=66.19  Aligned_cols=125  Identities=16%  Similarity=0.211  Sum_probs=74.6

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--chh
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--MET  116 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e~  116 (293)
                      ..+  .||++.+|-++-  +-+|.=..|+|+||+|||+|+.+++-++....       ++...+..++|+-.-+.  ++.
T Consensus        76 ~~i--sTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~-------~~gg~~~~vvYIdtE~~f~~eR  146 (313)
T TIGR02238        76 LKI--TTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPR-------EMGGGNGKVAYIDTEGTFRPDR  146 (313)
T ss_pred             cee--CCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcch-------hhcCCCCeEEEEEcCCCCCHHH
Confidence            346  799999999976  77899999999999999999999887653200       00112346888876653  555


Q ss_pred             HHHHHHhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         117 ARFFKQDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       117 ~~~~~~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      ...+-+.+.  ...++++ +.++.. ..  .++...  .-..+.+.+.+  ++--|||+||++-+-++
T Consensus       147 i~~~a~~~g~d~~~~l~~-i~~~~~-~~--~e~~~~--~l~~l~~~i~~--~~~~LvVIDSisal~r~  206 (313)
T TIGR02238       147 IRAIAERFGVDPDAVLDN-ILYARA-YT--SEHQME--LLDYLAAKFSE--EPFRLLIVDSIMALFRV  206 (313)
T ss_pred             HHHHHHHcCCChHHhcCc-EEEecC-CC--HHHHHH--HHHHHHHHhhc--cCCCEEEEEcchHhhhh
Confidence            555444332  1122344 333222 11  122111  11233444443  45668999999977543

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.

>PTZ00035 Rad51 protein; Provisional

Probab=97.51  E-value=0.00041  Score=66.88  Aligned_cols=126  Identities=13%  Similarity=0.230  Sum_probs=72.9

Q ss_pred             CCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc--cch
Q psy5595          40 RDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV--NME  115 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe--r~e  115 (293)
                      ...+  .||++.+|-++-  +-+|.-..|+|++|+|||+|+.+++..+...       ..+...+..++|+-.-+  +++
T Consensus        97 ~~~i--sTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp-------~~~gg~~g~vvyIdtE~~f~~e  167 (337)
T PTZ00035         97 IIRI--TTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLP-------IEQGGGEGKVLYIDTEGTFRPE  167 (337)
T ss_pred             Cccc--cCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccc-------cccCCCCceEEEEEccCCCCHH
Confidence            3456  899999999985  7789999999999999999999998765310       00111234566765433  245


Q ss_pred             hHHHHHHhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         116 TARFFKQDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       116 ~~~~~~~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      ...++.+.+.  ...++++. .+....+.  .++....   ..+.+.+. + ++--|||+||++-+-+.
T Consensus       168 ri~~ia~~~g~~~~~~l~nI-~~~~~~~~--e~~~~~l---~~~~~~l~-~-~~~~lvVIDSital~r~  228 (337)
T PTZ00035        168 RIVQIAERFGLDPEDVLDNI-AYARAYNH--EHQMQLL---SQAAAKMA-E-ERFALLIVDSATALFRV  228 (337)
T ss_pred             HHHHHHHHhCCChHhHhhce-EEEccCCH--HHHHHHH---HHHHHHhh-c-cCccEEEEECcHHhhhh
Confidence            4544443321  11233442 22222221  1111111   12233333 3 56779999999986543

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.48  E-value=0.00074  Score=65.37  Aligned_cols=122  Identities=16%  Similarity=0.243  Sum_probs=74.8

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc--cchhHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV--NMETARFFK  121 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe--r~e~~~~~~  121 (293)
                      .||++.+|-++.  +-+|.=..|+|+||+|||+|+.+++.++....       .+...+..++|+-.-+  +++...++.
T Consensus       106 ~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~-------~~gg~~g~vlyIdtE~~f~~eRl~qia  178 (342)
T PLN03186        106 TTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPL-------DQGGGEGKAMYIDTEGTFRPQRLIQIA  178 (342)
T ss_pred             CCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcch-------hhCCCCceEEEEECCCCccHHHHHHHH
Confidence            899999999766  66889999999999999999999998764210       1111234688887776  456555554


Q ss_pred             Hhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         122 QDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       122 ~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      +.+.  ...++++. .++...+  ..++....   ..+.+.+. . .+--|||+||++-+-+.
T Consensus       179 ~~~~~~~~~~l~~i-~~~~~~~--~e~~~~ll---~~~~~~~~-~-~~~~LIVIDSI~alfr~  233 (342)
T PLN03186        179 ERFGLNGADVLENV-AYARAYN--TDHQSELL---LEAASMMA-E-TRFALMIVDSATALYRT  233 (342)
T ss_pred             HHcCCChhhhccce-EEEecCC--HHHHHHHH---HHHHHHhh-c-cCCCEEEEeCcHHHHHH
Confidence            4332  12234443 3333222  12222111   12233343 3 46679999999987553

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.45  E-value=0.00023  Score=64.78  Aligned_cols=29  Identities=14%  Similarity=0.257  Sum_probs=25.0

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...+..+.|+||+|+|||||+..+++++.
T Consensus        42 ~~~~~~l~l~Gp~G~GKThLl~a~~~~~~   70 (235)
T PRK08084         42 QEHSGYIYLWSREGAGRSHLLHAACAELS   70 (235)
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            34457899999999999999999999874

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.45  E-value=0.00021  Score=68.05  Aligned_cols=27  Identities=11%  Similarity=0.254  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++.+.|.|++|+|||+|+..|++.+.
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~  181 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELA  181 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            466789999999999999999999985

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.42  E-value=0.00093  Score=65.34  Aligned_cols=45  Identities=18%  Similarity=0.282  Sum_probs=40.1

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.+  .||+.-+|-++-  +-+|+-++|.|+||+|||+|+.+++.+..+
T Consensus        62 ~ri--~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~  108 (372)
T cd01121          62 ERI--PTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK  108 (372)
T ss_pred             Ccc--ccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            356  899999999985  889999999999999999999999988753

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=97.42  E-value=0.0017  Score=58.02  Aligned_cols=57  Identities=16%  Similarity=0.188  Sum_probs=44.1

Q ss_pred             Cceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          48 GKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        48 GiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      ||+-+|-++  -+-+|.-++|.|+||+|||+++.+++.+..+             .+..|+|+..-+..+..
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~-------------~g~~~~y~s~e~~~~~l   59 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLK-------------NGEKAMYISLEEREERI   59 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh-------------CCCeEEEEECCCCHHHH
Confidence            566777766  3458999999999999999999999987643             23478888887765543

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.41  E-value=0.0013  Score=66.25  Aligned_cols=62  Identities=16%  Similarity=0.111  Sum_probs=51.6

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      +.+  .|||.-+|-++-  +-+|.-++|.|+||+|||+|+.+++.+..+             .+..|+|+.--|..+..
T Consensus       243 ~~~--~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~-------------~ge~~~y~s~eEs~~~i  306 (484)
T TIGR02655       243 VRV--SSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACA-------------NKERAILFAYEESRAQL  306 (484)
T ss_pred             ccc--CCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHH-------------CCCeEEEEEeeCCHHHH
Confidence            356  899999999874  779999999999999999999999998864             23478999888776544

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.40  E-value=0.0019  Score=55.32  Aligned_cols=41  Identities=10%  Similarity=0.009  Sum_probs=32.2

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      ++|.|+||+|||+|+.+++.+..+             .+..|+|+..-|..+.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~-------------~g~~v~~~s~e~~~~~~   42 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLA-------------RGEPGLYVTLEESPEEL   42 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH-------------CCCcEEEEECCCCHHHH
Confidence            579999999999999999998754             23457788777766554

A related protein is found in archaea.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.39  E-value=0.0009  Score=67.46  Aligned_cols=64  Identities=16%  Similarity=0.137  Sum_probs=51.8

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHH
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETAR  118 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~  118 (293)
                      +.+  .|||.-+|-++-  +-+|+-++|.|+||+|||+|+.+++.+..+.            .+..|+|+..-|..++..
T Consensus        11 ~ri--~TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~------------~ge~~lyis~ee~~~~i~   76 (509)
T PRK09302         11 EKL--PTGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKR------------FDEPGVFVTFEESPEDII   76 (509)
T ss_pred             ccc--cCCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh------------cCCCEEEEEccCCHHHHH
Confidence            356  899999999974  7899999999999999999999998876431            134688998888766543

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.38  E-value=0.00092  Score=66.76  Aligned_cols=107  Identities=18%  Similarity=0.242  Sum_probs=67.3

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHH
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETAR  118 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~  118 (293)
                      +.+  .||+.-+|-++.  +-+|+-++|.|+||+|||+|+.+++.+..+             ....++|+.--|..+.  
T Consensus        60 ~ri--~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~-------------~g~~vlYvs~Ees~~q--  122 (446)
T PRK11823         60 PRI--STGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAA-------------AGGKVLYVSGEESASQ--  122 (446)
T ss_pred             Ccc--cCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHh-------------cCCeEEEEEccccHHH--
Confidence            346  899999999985  778999999999999999999999988753             1235677654333333  


Q ss_pred             HHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         119 FFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       119 ~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                       +.+....-|. .++ +.+....+   .+         .+-+.+. + .+..++|+||++.+.
T Consensus       123 -i~~ra~rlg~~~~~-l~~~~e~~---l~---------~i~~~i~-~-~~~~lVVIDSIq~l~  169 (446)
T PRK11823        123 -IKLRAERLGLPSDN-LYLLAETN---LE---------AILATIE-E-EKPDLVVIDSIQTMY  169 (446)
T ss_pred             -HHHHHHHcCCChhc-EEEeCCCC---HH---------HHHHHHH-h-hCCCEEEEechhhhc
Confidence             3322222232 222 32322211   11         1222333 3 466789999998763

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.38  E-value=0.00081  Score=67.68  Aligned_cols=61  Identities=10%  Similarity=0.063  Sum_probs=49.3

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETAR  118 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~  118 (293)
                      .|||.-+|-++.  +-+|.-.+|.|+||+|||+|+.+++.+..+         +   .+..|+|+...|.+++..
T Consensus         4 ~TGI~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~~---------~---~ge~~lyvs~eE~~~~l~   66 (484)
T TIGR02655         4 RTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGII---------H---FDEPGVFVTFEESPQDII   66 (484)
T ss_pred             CCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHH---------h---CCCCEEEEEEecCHHHHH
Confidence            799999999987  779999999999999999999998776432         0   134688988888765543

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.37  E-value=0.00032  Score=67.48  Aligned_cols=36  Identities=11%  Similarity=0.238  Sum_probs=29.3

Q ss_pred             ceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          49 KRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        49 iraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|-|..  .++.++|+|++|+|||+|+..|++.+.
T Consensus       173 ~~f~~~f~~--~~~~Lll~G~~GtGKThLa~aIa~~l~  208 (329)
T PRK06835        173 KNFIENFDK--NNENLLFYGNTGTGKTFLSNCIAKELL  208 (329)
T ss_pred             HHHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            446666654  348899999999999999999999873

>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=97.35  E-value=0.0016  Score=51.63  Aligned_cols=27  Identities=11%  Similarity=0.229  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..+.|.|++|+|||+|+..++++..
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            467899999999999999999999873

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.

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=97.34  E-value=8.6e-05  Score=73.86  Aligned_cols=61  Identities=38%  Similarity=0.611  Sum_probs=52.8

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-+.-.        +++|.+++||.+.+++++++|||+|++.. .||+|++++|.+|+||=
T Consensus       232 ~VLli~DdlTr~a~A~REIsl~~ge~P~r~GYpp~lfs~L~~l~ERag~~~~-~GSITai~~V~~p~DD~  300 (436)
T PRK02118        232 KVLVLLTDMTNFADALKEISITMDQIPSNRGYPGSLYSDLASRYEKAVDFED-GGSITIIAVTTMPGDDV  300 (436)
T ss_pred             CEEEeccCchHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCCCC-CeeEEEEEEEEcCCCCc
Confidence            356667888876544        49999999999999999999999999865 89999999999999984

>PRK08727 hypothetical protein; Validated

Probab=97.33  E-value=0.00052  Score=62.40  Aligned_cols=25  Identities=20%  Similarity=0.326  Sum_probs=22.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-+.|.|++|+|||||++.+++++.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~   66 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAE   66 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3489999999999999999999874

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.32  E-value=0.0016  Score=60.35  Aligned_cols=123  Identities=14%  Similarity=0.231  Sum_probs=74.4

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--chhHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--METARFFK  121 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e~~~~~~  121 (293)
                      .||++.+|.++-  |-.|+=.=|+|+||+|||.|+.+++-++...       .+....+..+||+-..-.  .+...++.
T Consensus        21 ~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~-------~~~~g~~~~vvyidTe~~f~~~Rl~~i~   93 (256)
T PF08423_consen   21 STGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLP-------EEIGGLGGKVVYIDTEGTFSPERLQQIA   93 (256)
T ss_dssp             --SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSG-------GCTTSSSSEEEEEESSSSS-HHHHHHHH
T ss_pred             CCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcc-------cccccCCCceEEEeCCCCCCHHHHHHHh
Confidence            799999999983  7788899999999999999999999887421       011123457888755442  34444444


Q ss_pred             Hhh--hhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         122 QDF--EENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       122 ~~l--~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                      +..  ....++++..+ ....+.   .++.....  .+...+. + .+--|||+||++.+-+..
T Consensus        94 ~~~~~~~~~~l~~I~v-~~~~~~---~~l~~~L~--~l~~~l~-~-~~ikLIVIDSIaalfr~e  149 (256)
T PF08423_consen   94 ERFGLDPEEILDNIFV-IRVFDL---EELLELLE--QLPKLLS-E-SKIKLIVIDSIAALFRSE  149 (256)
T ss_dssp             HHTTS-HHHHHHTEEE-EE-SSH---HHHHHHHH--HHHHHHH-H-SCEEEEEEETSSHHHHHH
T ss_pred             hccccccchhhhceee-eecCCH---HHHHHHHH--HHHhhcc-c-cceEEEEecchHHHHHHH
Confidence            322  22234566444 333332   22221111  2334444 4 567899999999987653

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PRK14698 V-type ATP synthase subunit A; Provisional

Probab=97.31  E-value=0.0001  Score=80.05  Aligned_cols=69  Identities=14%  Similarity=0.074  Sum_probs=59.0

Q ss_pred             CCCCceeEEEe-cceeecccccCCCccccCCCC---------ccccCCCceeeeecccccCCceeeEecCCCCChhHHHH
Q psy5595          10 LTPDDLLYLEF-LTKFEKNFVSQEGERSFTPRD---------LIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAA   79 (293)
Q Consensus        10 ~~~~~~~~~e~-~~~~~~~~~~~~p~~r~~p~e---------~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~   79 (293)
                      -.+|.++++|+ .++.++..|.| .||.+.|++         ||  .||+|+||+|+|+.||...+|+|++|+||+.+-.
T Consensus       169 ~~~~~~~~~~~~~g~~~~~~~~~-~wpvr~~r~~~~~~~~~~pl--~tgqrv~d~~fp~~~ggt~~~~G~~G~GKCV~~d  245 (1017)
T PRK14698        169 TIEEVIAKVKTPSGEIKELKMYQ-RWPVRVKRPYKEKLPPEVPL--ITGQRVIDTFFPQAKGGTAAIPGPFGSGKCVDGD  245 (1017)
T ss_pred             ceeeEEEEEEcCCCCEEEeeeEe-cCCCCCCCcccccCCCCccc--ccccchHhhhhhhhcCceeEeccCCCcCcccCCc
Confidence            45789999998 67777888998 599888875         45  8999999999999999999999999999976544


Q ss_pred             HH
Q psy5595          80 QI   81 (293)
Q Consensus        80 ~I   81 (293)
                      .+
T Consensus       246 t~  247 (1017)
T PRK14698        246 TL  247 (1017)
T ss_pred             ce
Confidence            33

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.31  E-value=0.0013  Score=62.80  Aligned_cols=121  Identities=13%  Similarity=0.219  Sum_probs=69.1

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc--cchhHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV--NMETARFFK  121 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe--r~e~~~~~~  121 (293)
                      .||++.+|-++.  +-+|.=..|.|++|+|||+|+.+++.++....       .+...+..++|+-.-+  +++...++.
T Consensus        79 ~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~-------~~Gg~~~~vvyIdtE~~f~~~Rl~~ia  151 (316)
T TIGR02239        79 TTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPI-------DQGGGEGKALYIDTEGTFRPERLLAIA  151 (316)
T ss_pred             CCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhh-------hcCCCCceEEEEECCCCCCHHHHHHHH
Confidence            899999999776  66799999999999999999999998653210       0111123567765544  234343333


Q ss_pred             Hhhh--hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         122 QDFE--ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       122 ~~l~--~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                      +.+.  ...++++.. +....+  +.++....   -.+.+.+. . .+--|||+||++-+-+
T Consensus       152 ~~~~~~~~~~l~~i~-~~~~~~--~~~~~~~l---~~~~~~~~-~-~~~~LvVIDSI~al~r  205 (316)
T TIGR02239       152 ERYGLNPEDVLDNVA-YARAYN--TDHQLQLL---QQAAAMMS-E-SRFALLIVDSATALYR  205 (316)
T ss_pred             HHcCCChHHhhccEE-EEecCC--hHHHHHHH---HHHHHhhc-c-CCccEEEEECcHHHhh
Confidence            3221  112233322 222222  12221111   12223333 3 4567999999998744

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).

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.29  E-value=0.00053  Score=63.39  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=22.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-+.+.|++|+|||+|+..|++...
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~  124 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELL  124 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH
Confidence            4688999999999999999999874

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

Probab=97.26  E-value=0.00091  Score=65.85  Aligned_cols=88  Identities=9%  Similarity=0.181  Sum_probs=60.1

Q ss_pred             eeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCc
Q psy5595          50 RAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGS  129 (293)
Q Consensus        50 raID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~  129 (293)
                      +.|.-++-=++=..+.+.||||+|||||+.-|+..++.              ++                          
T Consensus        37 ~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~--------------~f--------------------------   76 (436)
T COG2256          37 KPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNA--------------AF--------------------------   76 (436)
T ss_pred             chHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCC--------------ce--------------------------
Confidence            44444444445557889999999999999999987742              10                          


Q ss_pred             cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHHh
Q psy5595         130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVS  187 (293)
Q Consensus       130 ~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~reis  187 (293)
                          .-+.++.+-  ...   ..-++.-|+.++.. |+.++|++|.+-||-.++.+.-
T Consensus        77 ----~~~sAv~~g--vkd---lr~i~e~a~~~~~~-gr~tiLflDEIHRfnK~QQD~l  124 (436)
T COG2256          77 ----EALSAVTSG--VKD---LREIIEEARKNRLL-GRRTILFLDEIHRFNKAQQDAL  124 (436)
T ss_pred             ----EEecccccc--HHH---HHHHHHHHHHHHhc-CCceEEEEehhhhcChhhhhhh
Confidence                111222222  222   34455667778877 9999999999999999998764

>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=97.21  E-value=0.00097  Score=61.23  Aligned_cols=24  Identities=21%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++++||||+|||||+.-|++..+
T Consensus        52 h~lf~GPPG~GKTTLA~IIA~e~~   75 (233)
T PF05496_consen   52 HMLFYGPPGLGKTTLARIIANELG   75 (233)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCccchhHHHHHHHhccC
Confidence            479999999999999999999885

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=97.16  E-value=0.0012  Score=59.72  Aligned_cols=24  Identities=4%  Similarity=0.008  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|+|++|+|||||+..|++++.
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~   64 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYL   64 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            368999999999999999999874

>PRK08116 hypothetical protein; Validated

Probab=97.16  E-value=0.00082  Score=62.70  Aligned_cols=23  Identities=17%  Similarity=0.242  Sum_probs=21.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.|++|+|||+|+..|++...
T Consensus       117 l~l~G~~GtGKThLa~aia~~l~  139 (268)
T PRK08116        117 LLLWGSVGTGKTYLAACIANELI  139 (268)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            88999999999999999999874

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.15  E-value=0.0037  Score=56.86  Aligned_cols=58  Identities=7%  Similarity=0.098  Sum_probs=41.3

Q ss_pred             CCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          47 SGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        47 TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      +++.-+|-++.  +-+|+.++|.|++|+|||+|+.+++.+..+             .+..++|+...+.+++.
T Consensus         8 ~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~-------------~g~~~~yi~~e~~~~~~   67 (230)
T PRK08533          8 LSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQ-------------NGYSVSYVSTQLTTTEF   67 (230)
T ss_pred             EEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHh-------------CCCcEEEEeCCCCHHHH
Confidence            44555555544  677999999999999999998877776532             13457888877765543

>PF13173 AAA_14: AAA domain

Probab=97.07  E-value=0.0024  Score=52.33  Aligned_cols=25  Identities=12%  Similarity=0.240  Sum_probs=21.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++-+.|.|+.|+|||||+.+++++.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~   26 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL   26 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4567899999999999999998775

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.06  E-value=0.001  Score=68.81  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.|++|+|||||+..|++.+.
T Consensus       317 L~LyG~sGsGKTHLL~AIa~~a~  339 (617)
T PRK14086        317 LFIYGESGLGKTHLLHAIGHYAR  339 (617)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            88899999999999999999874

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=97.05  E-value=0.0018  Score=61.04  Aligned_cols=115  Identities=20%  Similarity=0.247  Sum_probs=75.5

Q ss_pred             CCCCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEE-ecC-cc
Q psy5595          38 TPRDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFA-AMG-VN  113 (293)
Q Consensus        38 ~p~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~-~iG-er  113 (293)
                      ...+.+  .||.+.+|-++-  +-+|.-.=|||++|+|||+|+.+++-++.+             ....++|+ .-| -+
T Consensus        37 ~~~~~i--~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~-------------~g~~a~fIDtE~~l~  101 (279)
T COG0468          37 EDIEAI--STGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQK-------------PGGKAAFIDTEHALD  101 (279)
T ss_pred             hccccc--cccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhc-------------CCCeEEEEeCCCCCC
Confidence            335556  799999999887  336777889999999999999999999865             23355554 444 34


Q ss_pred             chhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCC--ceEEEecchhHHHHHH
Q psy5595         114 METARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK--HVLVILTDMSSYAEAL  183 (293)
Q Consensus       114 ~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~--~VLli~Dsltr~a~A~  183 (293)
                      ++....+-...     ++  -++++..+.        ..-++.+++.+... +.  --|+|+||++-+-++.
T Consensus       102 p~r~~~l~~~~-----~d--~l~v~~~~~--------~e~q~~i~~~~~~~-~~~~i~LvVVDSvaa~~r~~  157 (279)
T COG0468         102 PERAKQLGVDL-----LD--NLLVSQPDT--------GEQQLEIAEKLARS-GAEKIDLLVVDSVAALVRAE  157 (279)
T ss_pred             HHHHHHHHHhh-----hc--ceeEecCCC--------HHHHHHHHHHHHHh-ccCCCCEEEEecCcccchhh
Confidence            55555554432     11  234444444        33344555555554 44  6799999998766654

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.05  E-value=0.0029  Score=55.21  Aligned_cols=88  Identities=10%  Similarity=0.057  Sum_probs=54.2

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc-hhHHHHHHhhhhCCccccEEEEeeCCCC
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM-ETARFFKQDFEENGSMENVCLFLNLAND  142 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~-e~~~~~~~~l~~~g~~~~tvvv~stsd~  142 (293)
                      ++|.|++|+|||+++.+++.+.+                ..++|++..+.. .+...-.+..++..              
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~----------------~~~~y~at~~~~d~em~~rI~~H~~~R--------------   51 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELG----------------GPVTYIATAEAFDDEMAERIARHRKRR--------------   51 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC----------------CCeEEEEccCcCCHHHHHHHHHHHHhC--------------
Confidence            58999999999999999986632                256777777653 33332222222111              


Q ss_pred             chhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHH
Q psy5595         143 PTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR  184 (293)
Q Consensus       143 ~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~r  184 (293)
                        ..++........+.+.+.+. .++-++++|++|-|.....
T Consensus        52 --~~~w~t~E~~~~l~~~l~~~-~~~~~VLIDclt~~~~n~l   90 (169)
T cd00544          52 --PAHWRTIETPRDLVSALKEL-DPGDVVLIDCLTLWVTNLL   90 (169)
T ss_pred             --CCCceEeecHHHHHHHHHhc-CCCCEEEEEcHhHHHHHhC
Confidence              11222333344566666554 2344799999999988764

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=97.05  E-value=0.0011  Score=60.37  Aligned_cols=24  Identities=13%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+|||||++.|+++..
T Consensus        47 ~l~l~G~~G~GKTHLl~a~~~~~~   70 (234)
T PRK05642         47 LIYLWGKDGVGRSHLLQAACLRFE   70 (234)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999988763

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

Probab=97.01  E-value=0.0027  Score=51.11  Aligned_cols=95  Identities=11%  Similarity=0.113  Sum_probs=49.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch---hHHHHHHhhhhCCccccEEEE
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME---TARFFKQDFEENGSMENVCLF  136 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e---~~~~~~~~l~~~g~~~~tvvv  136 (293)
                      +++-+.|.|++|+|||+++..++++.....       ... ....++++-+.....   -...+.+.+....   ..   
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~-------~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~---~~---   68 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEA-------EIK-NHPDVIYVNCPSSRTPRDFAQEILEALGLPL---KS---   68 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHH-------HHC-CCEEEEEEEHHHHSSHHHHHHHHHHHHT-SS---SS---
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhh-------hcc-CCCcEEEEEeCCCCCHHHHHHHHHHHhCccc---cc---
Confidence            355678999999999999999999863100       000 024566666665542   2233333332221   11   


Q ss_pred             eeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         137 LNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       137 ~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                                +.......-.+.+.+...  +.++|++|+.-++.
T Consensus        69 ----------~~~~~~l~~~~~~~l~~~--~~~~lviDe~~~l~  100 (131)
T PF13401_consen   69 ----------RQTSDELRSLLIDALDRR--RVVLLVIDEADHLF  100 (131)
T ss_dssp             ----------TS-HHHHHHHHHHHHHHC--TEEEEEEETTHHHH
T ss_pred             ----------cCCHHHHHHHHHHHHHhc--CCeEEEEeChHhcC
Confidence                      111122223344555543  44899999998875

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=97.00  E-value=0.0015  Score=58.98  Aligned_cols=25  Identities=16%  Similarity=0.380  Sum_probs=22.6

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-+-|+|++|+|||||++.|++...
T Consensus        35 ~~l~l~G~~G~GKTHLL~Ai~~~~~   59 (219)
T PF00308_consen   35 NPLFLYGPSGLGKTHLLQAIANEAQ   59 (219)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999999874

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.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=96.99  E-value=0.0003  Score=70.58  Aligned_cols=62  Identities=63%  Similarity=1.003  Sum_probs=53.2

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||+|-..-.        ++.|.+++||...++.+...|||+|++..+.||+|.+++|.+++||-
T Consensus       239 ~VLli~DslTR~A~A~REIsl~~gepP~~~GYP~svfs~l~~LlERaG~~~~~~GSITai~tV~~~gdD~  308 (458)
T TIGR01041       239 HVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVKGKKGSITQMPILTMPGDDI  308 (458)
T ss_pred             cEEEEEcChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHhcccCCCCCcceEEEEEEEcCCCCC
Confidence            355557788765433        49999999999999999999999999887799999999999999984

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.99  E-value=0.0051  Score=56.71  Aligned_cols=47  Identities=11%  Similarity=0.108  Sum_probs=36.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      -+-+|+=++|.|+||+|||+++.+++.++.+             .+..++|...-|..++
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-------------~Ge~vlyfSlEes~~~  106 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMK-------------SGRTGVFFTLEYTEQD  106 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh-------------cCCeEEEEEEeCCHHH
Confidence            4678999999999999999999999998754             1335777766665433

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.96  E-value=0.0019  Score=64.24  Aligned_cols=25  Identities=16%  Similarity=0.211  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+.|.|++|+|||||+..|++.+.
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~  173 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYIL  173 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4588999999999999999999875

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.94  E-value=0.0027  Score=61.07  Aligned_cols=109  Identities=19%  Similarity=0.247  Sum_probs=67.8

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||...+|..++   +.+|.-+-|+|++++|||+|+...+.++.+             .+..|+|+-.- ..=.
T Consensus        31 ~~~i--~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~-------------~g~~~a~ID~e-~~ld   94 (322)
T PF00154_consen   31 IEVI--STGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK-------------QGGICAFIDAE-HALD   94 (322)
T ss_dssp             S-EE----S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-------------TT-EEEEEESS-S---
T ss_pred             cceE--ecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhc-------------ccceeEEecCc-ccch
Confidence            3456  899999999998   457888899999999999999988887754             25677777552 2211


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY  179 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~  179 (293)
                      ..+ .   ..-|+ +++ ++++ ..+.  .      .-++.++|.+... |.-.++|+||+..+
T Consensus        95 ~~~-a---~~lGvdl~r-llv~-~P~~--~------E~al~~~e~lirs-g~~~lVVvDSv~al  143 (322)
T PF00154_consen   95 PEY-A---ESLGVDLDR-LLVV-QPDT--G------EQALWIAEQLIRS-GAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHH-H---HHTT--GGG-EEEE-E-SS--H------HHHHHHHHHHHHT-TSESEEEEE-CTT-
T ss_pred             hhH-H---HhcCccccc-eEEe-cCCc--H------HHHHHHHHHHhhc-ccccEEEEecCccc
Confidence            122 2   22233 344 3333 3332  2      3467888888776 77789999998766

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>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=96.92  E-value=0.0035  Score=50.09  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=21.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.|++|+|||+++..++++.+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            58999999999999999999974

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 ....

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.92  E-value=0.0057  Score=58.96  Aligned_cols=96  Identities=11%  Similarity=0.166  Sum_probs=55.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh---HHHHHHhhhhCCccccEEE
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET---ARFFKQDFEENGSMENVCL  135 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~---~~~~~~~l~~~g~~~~tvv  135 (293)
                      ++++.+.|.|++|+|||+++..++++....           .....++|+-+-+....   ...+.+.+.....      
T Consensus        53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~-----------~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~------  115 (394)
T PRK00411         53 SRPLNVLIYGPPGTGKTTTVKKVFEELEEI-----------AVKVVYVYINCQIDRTRYAIFSEIARQLFGHPP------  115 (394)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHh-----------cCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCC------
Confidence            456789999999999999999999887421           12356777766554332   2333343322100      


Q ss_pred             EeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         136 FLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       136 v~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                        .....+ .     ...--.+.+++... ++.++|++|++-.+.
T Consensus       116 --~~~~~~-~-----~~~~~~~~~~l~~~-~~~~viviDE~d~l~  151 (394)
T PRK00411        116 --PSSGLS-F-----DELFDKIAEYLDER-DRVLIVALDDINYLF  151 (394)
T ss_pred             --CCCCCC-H-----HHHHHHHHHHHHhc-CCEEEEEECCHhHhh
Confidence              000000 0     11111233455544 788999999998776

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=96.91  E-value=0.00035  Score=70.10  Aligned_cols=62  Identities=63%  Similarity=1.019  Sum_probs=53.1

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||+|-..-.        ++.|.+++||...++.+...|||+|++..+.||+|.+++|.+++||-
T Consensus       241 ~VLli~DslTR~A~A~REIsl~~gepP~~~gYP~~vf~~l~~LlERaG~~~~~~GSITai~~V~~~gdD~  310 (460)
T PRK04196        241 HVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIKGKKGSITQIPILTMPDDDI  310 (460)
T ss_pred             cEEEEEcChHHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhcCCCCCeeeEEEEEEEcCCCCC
Confidence            355556788765333        48999999999999999999999999987899999999999999984

>PF05729 NACHT: NACHT domain

Probab=96.88  E-value=0.0049  Score=51.02  Aligned_cols=25  Identities=12%  Similarity=0.120  Sum_probs=22.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -+.|.|++|+|||+++..++.+..+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~   26 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAE   26 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHh
Confidence            3689999999999999999988754

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.84  E-value=0.0028  Score=58.36  Aligned_cols=29  Identities=7%  Similarity=0.023  Sum_probs=25.2

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +...+..+++.||||+|||+++..|++..
T Consensus        38 ~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881        38 TSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             CCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            44667789999999999999999999875

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.82  E-value=0.0044  Score=54.55  Aligned_cols=30  Identities=20%  Similarity=0.442  Sum_probs=25.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccC
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMP   91 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~   91 (293)
                      .|+.|+|+||+||||++..|+...+..|+.
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~~~i~hls   30 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKKLGLPHLD   30 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            379999999999999999999997765543

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.82  E-value=0.0062  Score=52.58  Aligned_cols=28  Identities=21%  Similarity=0.280  Sum_probs=25.5

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|+-..|.|++|+|||+++.+|+....
T Consensus        30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~   57 (193)
T PF13481_consen   30 PRGELTLIAGPPGSGKTTLALQLAAALA   57 (193)
T ss_dssp             -TTSEEEEEECSTSSHHHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999999999998875

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.80  E-value=0.0041  Score=54.26  Aligned_cols=88  Identities=17%  Similarity=0.204  Sum_probs=52.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc-hh-HHHHHHhhhhCCccccEEEEeeCC
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM-ET-ARFFKQDFEENGSMENVCLFLNLA  140 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~-e~-~~~~~~~l~~~g~~~~tvvv~sts  140 (293)
                      +++|.|++|+|||+++..++.+.++                -++|++.++-. ++ ...+.+...+.+   ..       
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~----------------~~~~iat~~~~~~e~~~ri~~h~~~R~---~~-------   56 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGL----------------QVLYIATAQPFDDEMAARIAHHRQRRP---AH-------   56 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCC----------------CcEeCcCCCCChHHHHHHHHHHHhcCC---CC-------
Confidence            6899999999999999999876531                25677777643 22 244444333332   11       


Q ss_pred             CCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         141 NDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       141 d~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                             +.....-..+++.+.+...+.-++++|+++.|....
T Consensus        57 -------w~t~E~~~~l~~~i~~~~~~~~~VlID~Lt~~~~n~   92 (170)
T PRK05800         57 -------WQTVEEPLDLAELLRADAAPGRCVLVDCLTTWVTNL   92 (170)
T ss_pred             -------CeEecccccHHHHHHhhcCCCCEEEehhHHHHHHHH
Confidence                   111111222455554411223379999999998754

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.80  E-value=0.0042  Score=62.14  Aligned_cols=24  Identities=8%  Similarity=0.178  Sum_probs=21.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+|||||++.|++...
T Consensus       143 pl~i~G~~G~GKTHLl~Ai~~~l~  166 (450)
T PRK14087        143 PLFIYGESGMGKTHLLKAAKNYIE  166 (450)
T ss_pred             ceEEECCCCCcHHHHHHHHHHHHH
Confidence            478999999999999999998653

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=96.70  E-value=0.0042  Score=56.85  Aligned_cols=95  Identities=16%  Similarity=0.255  Sum_probs=52.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch---hHHHHHHhhhhCCccccEEE
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME---TARFFKQDFEENGSMENVCL  135 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e---~~~~~~~~l~~~g~~~~tvv  135 (293)
                      ...+.++|.|.+|+|||+|+.++++....         .+  .-+.++++-.+....   ....+.+.+....   ... 
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~---------~~--~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~---~~~-   81 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRI---------KN--RFDGVIWVSLSKNPSLEQLLEQILRQLGEPD---SSI-   81 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHH---------CC--CCTEEEEEEEES-SCCHHHHHHHHHHHTCC----STS-
T ss_pred             CCeEEEEEEcCCcCCcceeeeeccccccc---------cc--ccccccccccccccccccccccccccccccc---ccc-
Confidence            45677899999999999999999977321         11  224566666665533   2344444443321   000 


Q ss_pred             EeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         136 FLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       136 v~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                          .+..-.     ....-.+.+.++   +++.|+|+||+-...
T Consensus        82 ----~~~~~~-----~~~~~~l~~~L~---~~~~LlVlDdv~~~~  114 (287)
T PF00931_consen   82 ----SDPKDI-----EELQDQLRELLK---DKRCLLVLDDVWDEE  114 (287)
T ss_dssp             ----SCCSSH-----HHHHHHHHHHHC---CTSEEEEEEEE-SHH
T ss_pred             ----cccccc-----ccccccchhhhc---cccceeeeeeecccc
Confidence                011111     112223344443   569999999987655

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.69  E-value=0.0062  Score=56.72  Aligned_cols=27  Identities=19%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.++|.||+|+|||+|+..|+++.+
T Consensus        29 ~~~~~ll~Gp~G~GKT~la~~ia~~~~   55 (305)
T TIGR00635        29 ALDHLLLYGPPGLGKTTLAHIIANEMG   55 (305)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            345689999999999999999999874

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.68  E-value=0.0034  Score=62.72  Aligned_cols=24  Identities=13%  Similarity=0.200  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+.|.|++|+|||||+..|++...
T Consensus       143 pl~L~G~~G~GKTHLl~Ai~~~l~  166 (445)
T PRK12422        143 PIYLFGPEGSGKTHLMQAAVHALR  166 (445)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999999874

>KOG1969|consensus

Probab=96.67  E-value=0.0032  Score=66.03  Aligned_cols=26  Identities=35%  Similarity=0.509  Sum_probs=22.2

Q ss_pred             Ccee-eEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKI-PIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~-~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -||+ ++.||||.|||||+.-||+|+|
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG  351 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG  351 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC
Confidence            3554 5679999999999999999995

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.66  E-value=0.00084  Score=67.05  Aligned_cols=61  Identities=23%  Similarity=0.288  Sum_probs=51.6

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|-..-.        ++.|.+++||...++.+..+|||+|+...+.||+|.+++|.+++||-
T Consensus       250 Vll~~DslTr~A~A~REisl~~ge~P~~~Gyp~~~f~~l~~l~ERaG~~~~~~GSIT~i~tVlv~gdD~  318 (442)
T PRK08927        250 VLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAELPRLLERAGPGPIGEGTITGLFTVLVDGDDH  318 (442)
T ss_pred             EEEEEeCcHHHHhhhhHHHHhcCCCCcccCCCcchHHHhhHHHHHhcCCCCCCeeeeeeeeeEccCCCC
Confidence            45556777765333        48899999999999999999999999877789999999999998873

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.65  E-value=0.0023  Score=59.39  Aligned_cols=30  Identities=17%  Similarity=0.282  Sum_probs=27.1

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+-+.|+||+|||||||+..|+--
T Consensus        23 ~L~v~~GEfvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          23 NLSVEKGEFVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             eeEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999999998863

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.65  E-value=0.0039  Score=60.95  Aligned_cols=26  Identities=15%  Similarity=0.195  Sum_probs=22.8

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..+.|.|++|+|||+|+..|++...
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~  161 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL  161 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            34578999999999999999999874

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).

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=96.65  E-value=0.00085  Score=67.26  Aligned_cols=62  Identities=74%  Similarity=1.095  Sum_probs=53.1

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||+|-..-.        ++.|.+++||...++.+...|||+|++.++.||+|.+++|.+++||-
T Consensus       248 ~VLl~~DslTr~A~A~REisl~~gepP~~~GYP~svfs~l~~L~ERaG~~~~~~GSITai~tV~~~~dD~  317 (466)
T TIGR01040       248 HVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDI  317 (466)
T ss_pred             cEEEeccChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHHHHHhhccccCCCCCcceEEEEEEECCCCCC
Confidence            355667788765433        48999999999999999999999999877789999999999999984

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.62  E-value=0.025  Score=51.18  Aligned_cols=50  Identities=12%  Similarity=0.179  Sum_probs=33.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcccccCCccccC--CC-CCceEEEEEecCccc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--DS-EDNFAIVFAAMGVNM  114 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~--~~-~~~~~~V~~~iGer~  114 (293)
                      |+=.+|.|++|+|||+|+.+++.++++    |..++.  .. .....++|+..-+..
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~----G~~~~g~~~~~~~~~~Vlyi~~Ed~~   53 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMAL----GKNLFGGGLKVTEPGRVVYLSAEDPR   53 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhc----CccccCCccccCCCceEEEEECCCCH
Confidence            455789999999999999999988753    555554  11 123456666544333

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>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=96.58  E-value=0.037  Score=47.28  Aligned_cols=48  Identities=10%  Similarity=0.048  Sum_probs=32.6

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc-hhHHHHHHhh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM-ETARFFKQDF  124 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~-e~~~~~~~~l  124 (293)
                      +++.|++|+|||+++..++....+             .+..++++-++-++ +..+.+....
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~-------------~g~~v~~i~~D~~~~~~~~~l~~~~   51 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKK-------------KGKKVLLVAADTYRPAAIEQLRVLG   51 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-------------CCCcEEEEEcCCCChHHHHHHHHhc
Confidence            678999999999999999887643             12356666667543 4444444433

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.

>CHL00181 cbbX CbbX; Provisional

Probab=96.57  E-value=0.0052  Score=57.89  Aligned_cols=30  Identities=13%  Similarity=0.162  Sum_probs=25.5

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-.+|-.+++.|+||+|||+++..+++...
T Consensus        55 ~~~~~~~ill~G~pGtGKT~lAr~la~~~~   84 (287)
T CHL00181         55 SSNPGLHMSFTGSPGTGKTTVALKMADILY   84 (287)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            345678899999999999999999988763

>PRK14974 cell division protein FtsY; Provisional

Probab=96.57  E-value=0.02  Score=55.36  Aligned_cols=96  Identities=15%  Similarity=0.155  Sum_probs=53.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc-cchhHHHHHHhhhhCCccccEEEEe
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV-NMETARFFKQDFEENGSMENVCLFL  137 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe-r~e~~~~~~~~l~~~g~~~~tvvv~  137 (293)
                      +++..+++.|++|+||||++..++.+...             .+..++++.++- |..-.+++.......|+   -++-.
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l~~-------------~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv---~v~~~  201 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKK-------------NGFSVVIAAGDTFRAGAIEQLEEHAERLGV---KVIKH  201 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHH-------------cCCeEEEecCCcCcHHHHHHHHHHHHHcCC---ceecc
Confidence            45788999999999999999999987642             123455566653 44444455433333331   11111


Q ss_pred             eCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH
Q psy5595         138 NLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY  179 (293)
Q Consensus       138 stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~  179 (293)
                      ....+|.    ...+.+   .++.+.. ++| +||+|.-.|.
T Consensus       202 ~~g~dp~----~v~~~a---i~~~~~~-~~D-vVLIDTaGr~  234 (336)
T PRK14974        202 KYGADPA----AVAYDA---IEHAKAR-GID-VVLIDTAGRM  234 (336)
T ss_pred             cCCCCHH----HHHHHH---HHHHHhC-CCC-EEEEECCCcc
Confidence            1122211    112222   3344444 777 8888887775

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=96.56  E-value=0.0028  Score=55.29  Aligned_cols=27  Identities=11%  Similarity=0.259  Sum_probs=23.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.++.+.|.||.|+|||+|+..+.+..
T Consensus        18 ~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen   18 GPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             --SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             hcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            457899999999999999999999987

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.55  E-value=0.0029  Score=56.04  Aligned_cols=37  Identities=11%  Similarity=0.217  Sum_probs=29.1

Q ss_pred             eeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          50 RAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        50 raID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+..++....+..++|.|++|+|||+|+..++++..
T Consensus        27 ~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~   63 (226)
T TIGR03420        27 AALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE   63 (226)
T ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444443356678899999999999999999999874

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.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.54  E-value=0.00079  Score=61.13  Aligned_cols=61  Identities=41%  Similarity=0.684  Sum_probs=50.5

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhcccc--ccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRV--EGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~--~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++...-        -++++.+++||+...+.++++|||+|++  ..+.||+|.++++.+++||-
T Consensus       107 Vlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~~~~~~l~~l~ERag~~~~~~~~GSIT~~~~v~~~~~d~  177 (215)
T PF00006_consen  107 VLLIIDSLTRWAQAYREISLLLGEPPGREGYPPSLFSDLASLYERAGKVNSEEGGGSITAIPTVLVPGDDI  177 (215)
T ss_dssp             EEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBTTHHHHHHHHHTTSEEBSTTTTSEEEEEEEEEEESTTBT
T ss_pred             eeehhhhhHHHHHHHHhhhcccccccccccccchhccchhhHHHHhhccccccCCceeeeecccccccccc
Confidence            3334567665432        2488999999999999999999999999  67899999999999999884

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.54  E-value=0.023  Score=51.60  Aligned_cols=60  Identities=12%  Similarity=0.137  Sum_probs=36.2

Q ss_pred             ccccCCCccccCCCCc-cccCCCceeeeec-ccccCCc-eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          27 NFVSQEGERSFTPRDL-IGDSSGKRAIDVM-NSIARGQ-KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        27 ~~~~~~p~~r~~p~e~-l~~~TGiraID~l-~pigrGQ-r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|+.++||...+.... .....--+++..+ ..+-+++ .++|.|++|+|||+|+..+++...
T Consensus         6 ~~l~~~pF~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015         6 FGFTTKPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             cCCCCCCCCCCCCHHHhCCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            5677778775444332 2000001233322 2233444 688999999999999999988763

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.

>PRK08118 topology modulation protein; Reviewed

Probab=96.53  E-value=0.0024  Score=55.27  Aligned_cols=27  Identities=19%  Similarity=0.327  Sum_probs=24.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhccc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLV   88 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~   88 (293)
                      +|+.|+|++|+|||||+..|++..+..
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            689999999999999999999987643

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.53  E-value=0.0012  Score=62.23  Aligned_cols=61  Identities=26%  Similarity=0.466  Sum_probs=50.9

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++...-        -++.|.+++||...++.+...+||+|++..  ..||+|.+++|.+++||-
T Consensus       163 Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp~~~f~~~~~L~ERag~~~~~~~~GSIT~i~~V~~~~dD~  233 (274)
T cd01132         163 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDV  233 (274)
T ss_pred             EEEEEcChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHhHHHHHHhhhccCCCCCcceEEEEEEEcCCCCc
Confidence            4555678887633        249999999999999999999999999863  479999999999999984

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.49  E-value=0.0021  Score=59.51  Aligned_cols=29  Identities=21%  Similarity=0.336  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|++.+|+|++|+|||||+..|+--
T Consensus        28 ~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          28 LEIERGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             EEecCCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            57999999999999999999999988753

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.49  E-value=0.0059  Score=54.62  Aligned_cols=28  Identities=11%  Similarity=0.202  Sum_probs=24.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+..+.|.|++|+|||+|+..|+++..
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~~   67 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADAS   67 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3456799999999999999999999873

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.47  E-value=0.016  Score=55.18  Aligned_cols=102  Identities=8%  Similarity=0.153  Sum_probs=55.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc---hhHHHHHHhhhhCCccccEEE
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM---ETARFFKQDFEENGSMENVCL  135 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~---e~~~~~~~~l~~~g~~~~tvv  135 (293)
                      ++++.+.|.|++|+|||+++..+.++.....       +........+|+-|-+-.   +....+.+.+...|.   .  
T Consensus        38 ~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~-------~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~---~--  105 (365)
T TIGR02928        38 SRPSNVFIYGKTGTGKTAVTKYVMKELEEAA-------EDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGE---E--  105 (365)
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHh-------hccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCC---C--
Confidence            4557899999999999999999988763210       000012456666654432   233344444421110   0  


Q ss_pred             EeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         136 FLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       136 v~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                       ......+ ..+     .--.+-+++... ++.++|++|++-.+.
T Consensus       106 -~~~~~~~-~~~-----~~~~l~~~l~~~-~~~~vlvIDE~d~L~  142 (365)
T TIGR02928       106 -VPTTGLS-TSE-----VFRRLYKELNER-GDSLIIVLDEIDYLV  142 (365)
T ss_pred             -CCCCCCC-HHH-----HHHHHHHHHHhc-CCeEEEEECchhhhc
Confidence             0001111 111     111223444444 788999999998875

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.

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=96.43  E-value=0.0073  Score=60.26  Aligned_cols=28  Identities=7%  Similarity=0.081  Sum_probs=25.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.++.++.++||+|+|||+|+.+|+.++
T Consensus       206 ve~~~Nli~lGp~GTGKThla~~l~~~~  233 (449)
T TIGR02688       206 VEPNYNLIELGPKGTGKSYIYNNLSPYV  233 (449)
T ss_pred             HhcCCcEEEECCCCCCHHHHHHHHhHHH
Confidence            4689999999999999999999999884

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.42  E-value=0.0028  Score=50.61  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++|.|+||+||||++.+++.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            579999999999999999999875

...

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.38  E-value=0.0032  Score=55.28  Aligned_cols=36  Identities=14%  Similarity=0.168  Sum_probs=30.3

Q ss_pred             eeeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          50 RAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        50 raID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+++-.+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        14 ~~l~~~~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          14 FLLVELGVVKEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEccCcEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            344445689999999999999999999999988654

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.35  E-value=0.0093  Score=59.46  Aligned_cols=25  Identities=16%  Similarity=0.251  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+.|.|++|+|||||+..|++...
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~  155 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Confidence            4689999999999999999999874

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.32  E-value=0.019  Score=56.61  Aligned_cols=28  Identities=14%  Similarity=0.238  Sum_probs=24.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++...++|.|++|+|||+|+..|++...
T Consensus        34 ~~~~~ilL~GppGtGKTtLA~~ia~~~~   61 (413)
T PRK13342         34 GRLSSMILWGPPGTGKTTLARIIAGATD   61 (413)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3445789999999999999999998863

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.32  E-value=0.034  Score=45.39  Aligned_cols=23  Identities=17%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.|+||+||||++.++++..+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            57899999999999999998763

...

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.32  E-value=0.014  Score=54.02  Aligned_cols=24  Identities=8%  Similarity=0.152  Sum_probs=21.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |+.|+|++|+|||+|+..|.....
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~   38 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLR   38 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhc
Confidence            789999999999999999987653

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.31  E-value=0.039  Score=52.91  Aligned_cols=28  Identities=7%  Similarity=0.145  Sum_probs=25.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|+.++++|++|+||||++..++....
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5799999999999999999999998764

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.31  E-value=0.0034  Score=54.59  Aligned_cols=30  Identities=13%  Similarity=0.256  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        13 l~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        13 FAAERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999987643

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.30  E-value=0.0034  Score=56.06  Aligned_cols=30  Identities=20%  Similarity=0.287  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+||.++|+|++|+|||||+..|+...
T Consensus        24 l~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          24 FSIKPGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            578899999999999999999999998654

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.30  E-value=0.0034  Score=54.26  Aligned_cols=30  Identities=13%  Similarity=0.249  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          21 LNIEAGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998543

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.30  E-value=0.014  Score=55.56  Aligned_cols=26  Identities=19%  Similarity=0.414  Sum_probs=23.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.||+|+|||+|+..+++..+
T Consensus        51 ~~~~ll~GppG~GKT~la~~ia~~l~   76 (328)
T PRK00080         51 LDHVLLYGPPGLGKTTLANIIANEMG   76 (328)
T ss_pred             CCcEEEECCCCccHHHHHHHHHHHhC
Confidence            35789999999999999999999875

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.28  E-value=0.0016  Score=61.21  Aligned_cols=59  Identities=20%  Similarity=0.297  Sum_probs=49.4

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++++..+|||+|+  .+.||+|+++++.+++||-
T Consensus       165 Vl~~~Dsltr~a~A~reis~~~ge~p~~~gyp~~~f~~~~~l~ERag~--~~~GSiT~~~~v~~~~dD~  231 (274)
T cd01133         165 VLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGALQERITS--TKKGSITSVQAVYVPADDL  231 (274)
T ss_pred             EEEEEeChhHHHHHHHHHHHHcCCCCCCcCcCccHHHHHHHHHHHhcC--CCCcccceEEEEEecCCCC
Confidence            44455777765433        48899999999999999999999997  4689999999999999884

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.27  E-value=0.0038  Score=55.36  Aligned_cols=30  Identities=17%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        25 ~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          25 LSIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            568899999999999999999999998653

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.27  E-value=0.0039  Score=55.04  Aligned_cols=31  Identities=13%  Similarity=0.162  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          20 SFSVEKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999998653

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.26  E-value=0.015  Score=57.67  Aligned_cols=42  Identities=19%  Similarity=0.280  Sum_probs=36.1

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .||+.=+|=.+=  +.+|+-++|=|+||.|||||+.|++.+.++
T Consensus        76 ~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~  119 (456)
T COG1066          76 STGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK  119 (456)
T ss_pred             cCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHh
Confidence            688887776653  478999999999999999999999998864

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.26  E-value=0.0021  Score=57.91  Aligned_cols=74  Identities=19%  Similarity=0.245  Sum_probs=53.7

Q ss_pred             CceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCC
Q psy5595          13 DDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPG   92 (293)
Q Consensus        13 ~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~   92 (293)
                      .++|+||...|.+...++.  |.|...+-.       +-  .-+++.+||.++|+|..|+|||||+.||+--..-+  +|
T Consensus         2 ~~LLeV~nLsKtF~~~~~l--f~r~~~~AV-------~~--vSFtL~~~QTlaiIG~NGSGKSTLakMlaGmi~PT--sG   68 (267)
T COG4167           2 ETLLEVRNLSKTFRYRTGL--FRRQTVEAV-------KP--VSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPT--SG   68 (267)
T ss_pred             cchhhhhhhhhhhhhhhhh--hhhhhhhcc-------cc--eEEEecCCcEEEEEccCCCcHhHHHHHHhcccCCC--Cc
Confidence            3688999888888887776  455433321       11  13679999999999999999999999998766543  35


Q ss_pred             ccccCCC
Q psy5595          93 KSVLDDS   99 (293)
Q Consensus        93 ~~~~~~~   99 (293)
                      ...+|.+
T Consensus        69 ~il~n~~   75 (267)
T COG4167          69 EILINDH   75 (267)
T ss_pred             eEEECCc
Confidence            5555553

>PRK07261 topology modulation protein; Provisional

Probab=96.26  E-value=0.0041  Score=53.89  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=22.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|++|+|++|+|||||+.+|++..+
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~~~~   25 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQHYN   25 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988764

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.26  E-value=0.0038  Score=50.86  Aligned_cols=27  Identities=15%  Similarity=0.227  Sum_probs=24.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      +.+..|+.++|.|++|+|||||+..+.
T Consensus        10 l~i~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          10 VDVYGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEcCCEEEEEEcCCCCCHHHHHHHhh
Confidence            467889999999999999999999886

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

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.24  E-value=0.0037  Score=55.63  Aligned_cols=41  Identities=12%  Similarity=0.198  Sum_probs=32.5

Q ss_pred             CCCceeeee-cccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDV-MNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~-l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++-+.+|- -+.+-+|.+++|.||+|+|||+|+.++|.-..
T Consensus        13 a~~a~il~~isl~v~~Ge~iaitGPSG~GKStllk~va~Lis   54 (223)
T COG4619          13 AGDAKILNNISLSVRAGEFIAITGPSGCGKSTLLKIVASLIS   54 (223)
T ss_pred             cCCCeeecceeeeecCCceEEEeCCCCccHHHHHHHHHhccC
Confidence            345555543 35678999999999999999999999988653

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.24  E-value=0.0041  Score=54.89  Aligned_cols=30  Identities=17%  Similarity=0.286  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 l~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          22 ISISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998653

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.23  E-value=0.004  Score=55.30  Aligned_cols=30  Identities=17%  Similarity=0.269  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        26 l~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        26 LSIGKGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            668899999999999999999999998653

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.23  E-value=0.0042  Score=55.50  Aligned_cols=30  Identities=13%  Similarity=0.269  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 l~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          21 LDIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            568899999999999999999999998754

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.22  E-value=0.002  Score=64.52  Aligned_cols=60  Identities=25%  Similarity=0.306  Sum_probs=51.1

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...++.+...|||+|+.  ..||+|.+++|.+++||-
T Consensus       233 ~VLl~~DslTR~A~A~REisl~~ge~P~~~GYP~~vfs~l~~L~ERag~~--~~GSIT~i~~V~~~~dD~  300 (449)
T TIGR03305       233 DVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEERIATT--SDGAITSIQAVYVPADDF  300 (449)
T ss_pred             ceEEEecChHHHHHHHHHHHHHcCCCCCccCcCchHHHHhHHHHHhhcCC--CCcCeeEEEEEEccCCCC
Confidence            355567788866443        499999999999999999999999985  589999999999999984

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=96.21  E-value=0.0022  Score=64.20  Aligned_cols=61  Identities=26%  Similarity=0.381  Sum_probs=50.6

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+...+.||+|.+++|.+++||-
T Consensus       267 Vll~~DslTr~A~A~rEisl~~ge~P~~~gypp~~f~~l~~l~ERag~~~~~~GSIT~i~tVlv~~dD~  335 (455)
T PRK07960        267 VLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGISGGGSITAFYTVLTEGDDQ  335 (455)
T ss_pred             eEEEecchhHHHHHHHHHHHhcCCCCccccCCcchhhhhhHHHHHHhcCCCCCeeeeeEEEEEEcCCCC
Confidence            44445677654322        48999999999999999999999999876789999999999998873

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.20  E-value=0.0041  Score=54.84  Aligned_cols=30  Identities=13%  Similarity=0.180  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          22 LTIKKGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998643

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.20  E-value=0.0041  Score=54.82  Aligned_cols=30  Identities=13%  Similarity=0.223  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          21 LTVKKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            467899999999999999999999998643

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.19  E-value=0.0041  Score=55.20  Aligned_cols=29  Identities=10%  Similarity=0.263  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          21 LTVPEGEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EEEcCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            57889999999999999999999988754

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.17  E-value=0.0042  Score=55.70  Aligned_cols=30  Identities=17%  Similarity=0.231  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        26 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          26 LSVPKGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            668899999999999999999999998654

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.17  E-value=0.0042  Score=55.95  Aligned_cols=30  Identities=20%  Similarity=0.281  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        23 LNINPGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            568899999999999999999999997643

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.16  E-value=0.0046  Score=54.82  Aligned_cols=30  Identities=13%  Similarity=0.184  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        24 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        24 FHITKGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998653

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=96.16  E-value=0.0018  Score=64.17  Aligned_cols=60  Identities=28%  Similarity=0.429  Sum_probs=51.6

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDV  289 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~  289 (293)
                      |++--||++-..-.        ++.|.+++||+..++.+...|||+|++....||+|.+++|.+++||
T Consensus       229 Vll~~Dsltr~A~A~REisl~~ge~P~~~gyp~~~f~~l~~l~ERag~~~~~~GSIT~~~tv~~~~dd  296 (411)
T TIGR03496       229 VLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGNGEEGKGSITAFYTVLVEGDD  296 (411)
T ss_pred             EEEEEeChHHHHHHHHHHHHhcCCCCCccCcCHHHHHHhHHHHHHhcccCCCCcceeEEEEEEccCCC
Confidence            55556787765332        4889999999999999999999999998789999999999999887

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>KOG2028|consensus

Probab=96.15  E-value=0.015  Score=57.30  Aligned_cols=24  Identities=13%  Similarity=0.271  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+.+.||||+|||+|+.-|+..+.
T Consensus       164 SmIlWGppG~GKTtlArlia~tsk  187 (554)
T KOG2028|consen  164 SMILWGPPGTGKTTLARLIASTSK  187 (554)
T ss_pred             ceEEecCCCCchHHHHHHHHhhcC
Confidence            467899999999999999988774

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.15  E-value=0.0044  Score=55.49  Aligned_cols=31  Identities=6%  Similarity=0.179  Sum_probs=27.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+.-.
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        20 SLEVPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             eeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999988643

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.15  E-value=0.0045  Score=54.32  Aligned_cols=30  Identities=17%  Similarity=0.223  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        19 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        19 LTIEKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999999998643

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.14  E-value=0.0047  Score=55.78  Aligned_cols=29  Identities=7%  Similarity=0.190  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         23 LDCPQGETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999854

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.14  E-value=0.0042  Score=50.67  Aligned_cols=30  Identities=13%  Similarity=0.211  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus         6 ~~i~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    6 LEIKPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEEccCCCccccceeeecccc
Confidence            457899999999999999999999887765

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 ....

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.13  E-value=0.015  Score=54.54  Aligned_cols=27  Identities=7%  Similarity=0.121  Sum_probs=23.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .|-.++|.|+||+|||+++..+++...
T Consensus        57 ~~~~vll~G~pGTGKT~lA~~ia~~l~   83 (284)
T TIGR02880        57 PTLHMSFTGNPGTGKTTVALRMAQILH   83 (284)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            455789999999999999998888774

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.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.13  E-value=0.005  Score=54.16  Aligned_cols=30  Identities=10%  Similarity=0.116  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+.-.
T Consensus        22 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         22 FHLPAGGLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999987654

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.13  E-value=0.0041  Score=55.79  Aligned_cols=29  Identities=14%  Similarity=0.131  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        21 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          21 FSVRPGEIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             EEecCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            56889999999999999999999999764

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=96.13  E-value=0.025  Score=56.04  Aligned_cols=154  Identities=12%  Similarity=0.043  Sum_probs=82.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEE
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVC  134 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tv  134 (293)
                      |+....||..+|=|.||+|||+++.++.+...-              ..-+.|+.-=--.+.+..+.  ...++.++++-
T Consensus         4 FF~~~~G~TLLIKG~PGTGKTtfaLelL~~l~~--------------~~~v~YISTRVd~d~vy~~y--~~~~~~i~~~~   67 (484)
T PF07088_consen    4 FFTQEPGQTLLIKGEPGTGKTTFALELLNSLKD--------------HGNVMYISTRVDQDTVYEMY--PWIEESIDPTN   67 (484)
T ss_pred             hhcCCCCcEEEEecCCCCCceeeehhhHHHHhc--------------cCCeEEEEeccCHHHHHHhh--hhhccccChhh
Confidence            567789999999999999999999988877641              12234443322233333222  23334455555


Q ss_pred             EEeeCCCCch-------hhhhchHHHHHHHHHHHHHhcCCceEEEecc----hhHHHHHHHHHhhhcCCCCCCCCCCCch
Q psy5595         135 LFLNLANDPT-------IERIITPRLALTTAEFLAYQCEKHVLVILTD----MSSYAEALREVSAAREEVPGRRGFPGYM  203 (293)
Q Consensus       135 vv~stsd~~~-------~~r~~a~~~a~tiAEyfr~~~G~~VLli~Ds----ltr~a~A~reisl~~ge~p~~~gyp~~l  203 (293)
                      ++-.+.|.--       ..+...+......-+.+ +..+++.+|++||    +...|.-       -+.       |.++
T Consensus        68 vlDatQd~~~~~~~~~vp~~~l~~ds~~~f~~~i-~~~~k~~iI~~DSWdaiieyla~~-------~~~-------~ed~  132 (484)
T PF07088_consen   68 VLDATQDPFELPLDKDVPFERLDIDSFRDFVDKI-NEAGKKPIIAFDSWDAIIEYLAEE-------HDE-------PEDI  132 (484)
T ss_pred             hhhhccchhhccccccCcccccCHHHHHHHHHHh-hhcccCcEEEEecHHHHHHHhhhh-------hcC-------cHHH
Confidence            5544444211       11111222222222333 2238999999999    4444431       122       3444


Q ss_pred             hhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccccccc
Q psy5595         204 YTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSAARE  244 (293)
Q Consensus       204 f~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi~~~  244 (293)
                      -+..-.|.|=|..     .-+=.+.+.+....+--|++.|+
T Consensus       133 e~l~~dLv~lard-----~g~~LIlVsEsa~~~~LdYivDG  168 (484)
T PF07088_consen  133 ETLTNDLVELARD-----MGINLILVSESAENEPLDYIVDG  168 (484)
T ss_pred             HHHHHHHHHHHhh-----cCceEEEEEecCCCCcchheeee
Confidence            4444555554443     22334444444444455888886

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.12  E-value=0.0047  Score=55.53  Aligned_cols=30  Identities=13%  Similarity=0.205  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          22 LSINPGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            568899999999999999999999998643

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.12  E-value=0.0049  Score=54.88  Aligned_cols=31  Identities=13%  Similarity=0.208  Sum_probs=27.5

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+..+|+|++|+|||||+..|+..
T Consensus        19 vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          19 VSFRVRRGEIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             eeEEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3367889999999999999999999999864

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.12  E-value=0.0049  Score=55.64  Aligned_cols=30  Identities=13%  Similarity=0.257  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          23 LDIPSGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999998754

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.09  E-value=0.0052  Score=55.24  Aligned_cols=31  Identities=16%  Similarity=0.235  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          20 DLDVRRGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999999999998643

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=96.08  E-value=0.0057  Score=54.01  Aligned_cols=33  Identities=15%  Similarity=0.180  Sum_probs=29.6

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|++.+|+|++|+|||||+..|+.-.
T Consensus        16 ~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          16 HFDLTFAQGEITAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            666889999999999999999999999998654

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.08  E-value=0.0053  Score=54.03  Aligned_cols=30  Identities=13%  Similarity=0.179  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          21 LDLYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999999999998654

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.06  E-value=0.005  Score=54.78  Aligned_cols=30  Identities=20%  Similarity=0.299  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          26 FSIKKGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999999998654

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.06  E-value=0.0026  Score=59.95  Aligned_cols=62  Identities=73%  Similarity=1.080  Sum_probs=52.5

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...++.+...+||+|++..+.||+|.+++|.+++||-
T Consensus       167 ~VLl~~D~ltr~A~A~rEisl~~gepP~~~gyp~~vf~~~~~l~ERag~~~~~~GSITa~~~V~~~~dD~  236 (276)
T cd01135         167 HVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDI  236 (276)
T ss_pred             eEEEEEcChhHHHHHHHHHHhccCCCCCccCcCccHHHHhhHHheecccCCCCCeeEEEEEEEEccCCCc
Confidence            355556788765433        48899999999999999999999999876689999999999999984

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.06  E-value=0.0053  Score=54.38  Aligned_cols=30  Identities=7%  Similarity=0.121  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+.-.
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          26 FTVKPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            567899999999999999999999998643

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.06  E-value=0.0055  Score=55.22  Aligned_cols=29  Identities=10%  Similarity=0.280  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        22 FTVRPGEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999854

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.06  E-value=0.0059  Score=52.70  Aligned_cols=32  Identities=13%  Similarity=0.294  Sum_probs=28.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+..+|.|++|+|||||+..|+...
T Consensus        21 i~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          21 LSLELKQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EEEEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34567799999999999999999999998765

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.05  E-value=0.0054  Score=54.23  Aligned_cols=30  Identities=10%  Similarity=0.237  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          21 LTVEPGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998643

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.05  E-value=0.0055  Score=54.27  Aligned_cols=30  Identities=13%  Similarity=0.190  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         23 FTLAAGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999999999998754

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.05  E-value=0.0025  Score=63.64  Aligned_cols=61  Identities=26%  Similarity=0.368  Sum_probs=51.5

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|-..-.        ++.|.+++||...++.+..+|||+|+...+.||+|.+++|.+++||-
T Consensus       254 VLl~~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~L~ERAg~~~~~~GSITai~tVl~~gdD~  322 (444)
T PRK08972        254 VLLLMDSLTRYAQAQREIALAVGEPPATKGYPPSVFAKLPALVERAGNGGPGQGSITAFYTVLTEGDDL  322 (444)
T ss_pred             EEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHHHHHHhcCCCCCCceeeeEEEEEEeCCCC
Confidence            55556787765332        48899999999999999999999999877789999999999998873

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.04  E-value=0.0053  Score=55.80  Aligned_cols=28  Identities=7%  Similarity=0.158  Sum_probs=25.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.
T Consensus        26 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G   53 (252)
T PRK14255         26 LDFNQNEITALIGPSGCGKSTYLRTLNR   53 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            4688999999999999999999999975

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.03  E-value=0.0054  Score=55.68  Aligned_cols=30  Identities=10%  Similarity=0.121  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         24 LEIPDNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            567899999999999999999999998653

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.03  E-value=0.0057  Score=54.01  Aligned_cols=30  Identities=17%  Similarity=0.218  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          21 LDIADGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            458899999999999999999999998754

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.03  E-value=0.0054  Score=54.86  Aligned_cols=29  Identities=14%  Similarity=0.190  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|++++|+|++|+|||||+..|+..
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          21 LSVKQGEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             eEecCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999864

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.02  E-value=0.006  Score=54.67  Aligned_cols=31  Identities=16%  Similarity=0.243  Sum_probs=27.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        22 ~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          22 SLDIPAGETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            3467899999999999999999999997654

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.01  E-value=0.0055  Score=55.12  Aligned_cols=29  Identities=14%  Similarity=0.308  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+.++|+|++|+|||||+..|+..
T Consensus        21 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        21 LTVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999864

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.00  E-value=0.0064  Score=52.06  Aligned_cols=30  Identities=13%  Similarity=0.214  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          21 LSVRRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999997654

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.00  E-value=0.0059  Score=53.94  Aligned_cols=29  Identities=10%  Similarity=0.172  Sum_probs=26.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        23 ~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        23 LHIRKGEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999988764

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=96.00  E-value=0.0059  Score=54.16  Aligned_cols=30  Identities=17%  Similarity=0.263  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   54 (220)
T cd03245          25 LTIRAGEKVAIIGRVGSGKSTLLKLLAGLY   54 (220)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            568899999999999999999999998653

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.00  E-value=0.0059  Score=53.60  Aligned_cols=31  Identities=13%  Similarity=0.120  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.+|++++|.|++|+|||||+..|....+
T Consensus        16 l~i~~G~~~~l~G~nG~GKSTLl~~il~~~G   46 (176)
T cd03238          16 VSIPLNVLVVVTGVSGSGKSTLVNEGLYASG   46 (176)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhhcCC
Confidence            5789999999999999999999998864333

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.00  E-value=0.0061  Score=55.77  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        33 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   61 (259)
T PRK14274         33 LSIPENEVTAIIGPSGCGKSTFIKTLNLM   61 (259)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            55789999999999999999999999864

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.99  E-value=0.024  Score=55.76  Aligned_cols=41  Identities=20%  Similarity=0.346  Sum_probs=38.0

Q ss_pred             CCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++ -+.+|+=+.|-|.||+|||+++.+|+.+++
T Consensus       178 ~tG~~~LD~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a  219 (421)
T TIGR03600       178 STGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVA  219 (421)
T ss_pred             eCCChhHHHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHH
Confidence            89999999988 588999999999999999999999998774

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>TIGR00665 DnaB replicative DNA helicase

Probab=95.99  E-value=0.03  Score=55.23  Aligned_cols=41  Identities=17%  Similarity=0.276  Sum_probs=37.7

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++- +.+|+=+.|-|.||+|||+++.+++.+.+
T Consensus       179 ~tG~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a  220 (434)
T TIGR00665       179 PTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAA  220 (434)
T ss_pred             cCCchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHH
Confidence            899999999874 88999999999999999999999998865

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.98  E-value=0.0058  Score=55.57  Aligned_cols=30  Identities=10%  Similarity=0.170  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        25 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         25 LKIPQNGVFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            668899999999999999999999988653

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.98  E-value=0.0075  Score=52.83  Aligned_cols=33  Identities=15%  Similarity=0.067  Sum_probs=28.5

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|++++|.|++|+|||||+..|+...
T Consensus        18 ~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         18 DLSITFLPSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            333568899999999999999999999998754

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.98  E-value=0.0055  Score=54.19  Aligned_cols=30  Identities=13%  Similarity=0.184  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 l~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          20 FEVKPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            468899999999999999999999987653

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=95.97  E-value=0.0061  Score=53.62  Aligned_cols=31  Identities=10%  Similarity=0.254  Sum_probs=28.0

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        25 s~~i~~G~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          25 NLEVPKGELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            3678899999999999999999999998764

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.97  E-value=0.0059  Score=54.33  Aligned_cols=30  Identities=13%  Similarity=0.243  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          25 LSVEEGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998653

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.97  E-value=0.0061  Score=54.46  Aligned_cols=30  Identities=17%  Similarity=0.315  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        31 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         31 LVVKRGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999999999998754

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=95.97  E-value=0.006  Score=55.36  Aligned_cols=31  Identities=13%  Similarity=0.215  Sum_probs=27.5

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        21 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14240         21 KINLDIEENQVTALIGPSGCGKSTFLRTLNR   51 (250)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3446688999999999999999999999985

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=95.96  E-value=0.0065  Score=54.85  Aligned_cols=30  Identities=7%  Similarity=0.146  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        24 l~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         24 LTVNSGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999999999998754

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=95.96  E-value=0.0035  Score=63.54  Aligned_cols=61  Identities=28%  Similarity=0.446  Sum_probs=51.1

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||+|...-.        ++.|.+++||...++.+...+||+|++.. .||+|.+|+|.+++||-
T Consensus       234 dVLlv~DdLTr~A~A~REisLllgepPgregYPg~vF~~~srLlERAg~~~g-~GSITalpiV~t~~dDi  302 (507)
T PRK07165        234 DVLIVFDDLTKHANIYREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFKN-RKTITALPILQTVDNDI  302 (507)
T ss_pred             ceEEEEcChHHHHHHHHHHHhhccCCCCccCCCchHHHHhHHHHHhccCCCC-CCceEEEEEEECCCCCC
Confidence            355556788865333        48899999999999999999999999965 59999999999999984

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.96  E-value=0.0058  Score=59.47  Aligned_cols=35  Identities=17%  Similarity=0.335  Sum_probs=30.2

Q ss_pred             ceeee-ecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          49 KRAID-VMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        49 iraID-~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      ..++| .=+.|.+|.-..++||+|||||||+.+||-
T Consensus        18 ~~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          18 FTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             eeEEecceeeecCCcEEEEECCCCCCHHHHHHHHhC
Confidence            45554 556899999999999999999999999986

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=95.95  E-value=0.0063  Score=55.62  Aligned_cols=31  Identities=10%  Similarity=0.182  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|.|++|+|||||+..|+...
T Consensus        26 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         26 SFDLYPGEVLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             eEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999998754

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=95.95  E-value=0.0063  Score=54.70  Aligned_cols=31  Identities=19%  Similarity=0.200  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          22 SLRIKPGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            3567899999999999999999999998654

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.95  E-value=0.0065  Score=55.78  Aligned_cols=30  Identities=10%  Similarity=0.228  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         22 LTLESGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.94  E-value=0.079  Score=49.60  Aligned_cols=29  Identities=10%  Similarity=0.154  Sum_probs=25.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.+++.+.++|++|+||||++..++....
T Consensus        69 ~~~~~vi~l~G~~G~GKTTt~akLA~~l~   97 (272)
T TIGR00064        69 ENKPNVILFVGVNGVGKTTTIAKLANKLK   97 (272)
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45678999999999999999999998774

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=95.94  E-value=0.0063  Score=54.70  Aligned_cols=31  Identities=16%  Similarity=0.185  Sum_probs=27.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|.|++|+|||||+..|+...
T Consensus         6 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770         6 NLSLKRGEVLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999999999998754

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

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

Probab=95.94  E-value=0.014  Score=55.54  Aligned_cols=25  Identities=24%  Similarity=0.513  Sum_probs=22.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -+++|||||+|||||+.-||+..+.
T Consensus        54 HvLl~GPPGlGKTTLA~IIA~Emgv   78 (332)
T COG2255          54 HVLLFGPPGLGKTTLAHIIANELGV   78 (332)
T ss_pred             eEEeeCCCCCcHHHHHHHHHHHhcC
Confidence            4789999999999999999998864

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.93  E-value=0.0064  Score=54.10  Aligned_cols=29  Identities=7%  Similarity=0.147  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|++++|+|++|+|||||+..|+.-
T Consensus        32 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         32 FHVDAGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             EEECCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            55889999999999999999999999864

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=95.93  E-value=0.0067  Score=54.72  Aligned_cols=29  Identities=17%  Similarity=0.278  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        22 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         22 LNIDQGEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999864

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.93  E-value=0.0067  Score=54.96  Aligned_cols=31  Identities=16%  Similarity=0.172  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        23 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         23 SVKFEGGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3668899999999999999999999998653

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.92  E-value=0.0065  Score=55.05  Aligned_cols=29  Identities=14%  Similarity=0.194  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         24 LEVKPGEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            56889999999999999999999998864

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.92  E-value=0.0068  Score=53.79  Aligned_cols=30  Identities=7%  Similarity=0.164  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          23 LNVYKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998654

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=95.92  E-value=0.0066  Score=54.60  Aligned_cols=31  Identities=13%  Similarity=0.269  Sum_probs=27.9

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        23 ~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          23 SLTIPPGKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             EEEecCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            3578899999999999999999999998764

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=95.92  E-value=0.0066  Score=53.97  Aligned_cols=30  Identities=20%  Similarity=0.197  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          22 IRIPTGQLTMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            568899999999999999999999998654

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.90  E-value=0.0074  Score=51.95  Aligned_cols=30  Identities=10%  Similarity=0.186  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          21 LTVEKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            457899999999999999999999997654

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=95.90  E-value=0.0073  Score=54.61  Aligned_cols=29  Identities=21%  Similarity=0.282  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+..
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          22 LEIAKGEFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            56889999999999999999999999764

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.90  E-value=0.0071  Score=51.91  Aligned_cols=30  Identities=13%  Similarity=0.183  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|++.+|.|++|+|||||+..|+...
T Consensus        22 l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          22 FEIKPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998764

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.89  E-value=0.007  Score=52.51  Aligned_cols=30  Identities=17%  Similarity=0.211  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          21 FEVRAGEIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998754

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.89  E-value=0.0073  Score=54.30  Aligned_cols=30  Identities=17%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        30 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         30 FSIGEGEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998643

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.88  E-value=0.0073  Score=53.19  Aligned_cols=30  Identities=10%  Similarity=0.111  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          21 LHVKKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            468899999999999999999999998643

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=95.88  E-value=0.007  Score=53.36  Aligned_cols=31  Identities=10%  Similarity=0.198  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+-+|++++|+|++|+|||||+..|+...
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          20 SFTLAAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999998754

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.87  E-value=0.0081  Score=51.68  Aligned_cols=30  Identities=23%  Similarity=0.296  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          23 FSIEPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            567899999999999999999999998754

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=95.87  E-value=0.0072  Score=54.29  Aligned_cols=33  Identities=15%  Similarity=0.304  Sum_probs=28.9

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        17 ~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (232)
T PRK10771         17 RFDLTVERGERVAILGPSGAGKSTLLNLIAGFL   49 (232)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455778999999999999999999999987653

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=95.86  E-value=0.0067  Score=55.81  Aligned_cols=30  Identities=10%  Similarity=0.196  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        32 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T PRK10575         32 LTFPAGKVTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            567899999999999999999999998653

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=95.86  E-value=0.0075  Score=54.86  Aligned_cols=30  Identities=20%  Similarity=0.326  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005        21 FSVAAGEKVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998643

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.86  E-value=0.0073  Score=54.16  Aligned_cols=30  Identities=13%  Similarity=0.114  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         28 FSLRAGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            567899999999999999999999988643

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.86  E-value=0.0039  Score=62.62  Aligned_cols=59  Identities=20%  Similarity=0.298  Sum_probs=50.0

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+.  ..||+|.+++|.+++||-
T Consensus       239 VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~--~~GSITai~tVl~~gdD~  305 (461)
T TIGR01039       239 VLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQERITST--KTGSITSVQAVYVPADDL  305 (461)
T ss_pred             eEEEecchhHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCC--CCCceeEEEEEEccCCCC
Confidence            45556788765433        489999999999999999999999975  589999999999999984

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.85  E-value=0.0073  Score=54.90  Aligned_cols=29  Identities=10%  Similarity=0.149  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        27 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         27 LEFEQNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            46889999999999999999999999854

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

Probab=95.85  E-value=0.026  Score=55.65  Aligned_cols=24  Identities=13%  Similarity=0.314  Sum_probs=21.9

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +||.||||||||.++..|++..+.
T Consensus       151 llL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        151 LGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHcCC
Confidence            688999999999999999999863

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.84  E-value=0.016  Score=54.43  Aligned_cols=61  Identities=20%  Similarity=0.148  Sum_probs=43.8

Q ss_pred             ceeEEEecceeecccccCCCccccCCCCccccCCCceeee-ecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          14 DLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAID-VMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        14 ~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID-~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++++-..+.+.-+-.   +.+..         -++++| .=+.|.+|+..+|+|.+|+|||||...|.+-..
T Consensus         3 ~ll~v~~l~k~f~~~~~---~~~~~---------~v~avd~Vsf~i~~ge~~glVGESG~GKSTlgr~i~~L~~   64 (268)
T COG4608           3 PLLEVKNLKKYFPVGKG---FGKKR---------YVKAVDGVSFSIKEGETLGLVGESGCGKSTLGRLILGLEE   64 (268)
T ss_pred             ceEEEeccEEEEecccc---cCccc---------ceEEecceeEEEcCCCEEEEEecCCCCHHHHHHHHHcCcC
Confidence            46777776666543221   11111         157776 568999999999999999999999999988654

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=95.84  E-value=0.0077  Score=52.18  Aligned_cols=30  Identities=17%  Similarity=0.253  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|.|++|+|||||+..|+...
T Consensus        20 ~~i~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          20 LSIEAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            457899999999999999999999997654

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.84  E-value=0.004  Score=62.42  Aligned_cols=61  Identities=28%  Similarity=0.415  Sum_probs=51.2

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+.....||+|.+++|.+++||-
T Consensus       260 VLl~~DslTR~A~A~REisl~~gepP~~~GYp~svfs~l~~l~ERag~~~~~~GSITai~tVl~~gdD~  328 (451)
T PRK05688        260 VLLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEPGGGSITAFYTVLSEGDDQ  328 (451)
T ss_pred             EEEEecchhHHHHHHHHHHHhcCCCCcccCCCchHHHHhHHHHHHhcCCCCCCceeeEEEEEEecCCCC
Confidence            45556787765333        48999999999999999999999998865689999999999998883

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.83  E-value=0.0079  Score=53.77  Aligned_cols=31  Identities=16%  Similarity=0.257  Sum_probs=27.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|.|++|+|||||+..|+...
T Consensus         7 s~~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177          7 DFVMGYHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3678999999999999999999999998654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.82  E-value=0.022  Score=55.95  Aligned_cols=40  Identities=13%  Similarity=0.304  Sum_probs=32.1

Q ss_pred             CCCceeeeec-ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          46 SSGKRAIDVM-NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        46 ~TGiraID~l-~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..-+.+++.. ..+.+|+.++++||+|+||||++..|+...
T Consensus       121 ~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        121 AANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             HhcchhhcCCCccccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445556555 346789999999999999999999999875

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=95.82  E-value=0.0078  Score=55.68  Aligned_cols=33  Identities=9%  Similarity=0.145  Sum_probs=28.4

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   57 (272)
T PRK15056         25 DASFTVPGGSIAALVGVNGSGKSTLFKALMGFV   57 (272)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334578899999999999999999999998653

>PRK14527 adenylate kinase; Provisional

Probab=95.82  E-value=0.033  Score=48.62  Aligned_cols=38  Identities=16%  Similarity=0.358  Sum_probs=31.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCcccc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL   96 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~   96 (293)
                      -+|+.++|+|+||+||||++..|+..-+..++..+.++
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~~~~is~gd~~   41 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELGLKKLSTGDIL   41 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCCCCCccHHH
Confidence            47899999999999999999999988776665544444

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.81  E-value=0.0081  Score=54.49  Aligned_cols=29  Identities=21%  Similarity=0.248  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14262         24 MKIFKNQITAIIGPSGCGKTTLLRSINRM   52 (250)
T ss_pred             EeecCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            56789999999999999999999999853

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=95.81  E-value=0.008  Score=54.21  Aligned_cols=30  Identities=13%  Similarity=0.155  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        23 LYVDPGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999998643

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=95.80  E-value=0.008  Score=55.49  Aligned_cols=31  Identities=19%  Similarity=0.318  Sum_probs=27.8

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        27 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (269)
T PRK11831         27 SLTVPRGKITAIMGPSGIGKTTLLRLIGGQI   57 (269)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4678899999999999999999999998654

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=95.80  E-value=0.0078  Score=55.60  Aligned_cols=30  Identities=10%  Similarity=0.165  Sum_probs=26.9

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|++++|+|++|+|||||+..|+....
T Consensus        22 ~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~   51 (255)
T cd03236          22 VPREGQVLGLVGPNGIGKSTALKILAGKLK   51 (255)
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            388999999999999999999999887653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.80  E-value=0.008  Score=53.57  Aligned_cols=30  Identities=7%  Similarity=0.204  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|.|++|+|||||+..|+.-.
T Consensus        29 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        29 LTVNAGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999999999997653

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=95.80  E-value=0.008  Score=56.57  Aligned_cols=31  Identities=6%  Similarity=0.090  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+.-.
T Consensus        13 s~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        13 NFKVREGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999999999998643

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=95.79  E-value=0.0076  Score=54.78  Aligned_cols=30  Identities=10%  Similarity=0.192  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|++++|+|++|+|||||+..|+...
T Consensus        24 l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        24 FDLYPGEVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999988654

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=95.79  E-value=0.008  Score=53.60  Aligned_cols=30  Identities=7%  Similarity=0.127  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (223)
T TIGR03740        21 LTVPKNSVYGLLGPNGAGKSTLLKMITGIL   50 (223)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999999988643

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.79  E-value=0.0081  Score=54.92  Aligned_cols=30  Identities=10%  Similarity=0.137  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        25 l~i~~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         25 LNIEPRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            568899999999999999999999998643

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=95.79  E-value=0.0083  Score=55.40  Aligned_cols=30  Identities=13%  Similarity=0.213  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        33 l~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         33 LHIPAGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998654

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.79  E-value=0.0084  Score=53.77  Aligned_cols=31  Identities=23%  Similarity=0.304  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|.|++|+|||||+..|+...
T Consensus        21 ~~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          21 SFTIPAGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            4567899999999999999999999998654

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10908 cell division protein FtsE; Provisional

Probab=95.78  E-value=0.0086  Score=53.36  Aligned_cols=30  Identities=13%  Similarity=0.210  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         23 FHMRPGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998654

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=95.77  E-value=0.0081  Score=54.30  Aligned_cols=29  Identities=10%  Similarity=0.236  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|++++|+|++|+|||||+..|+..
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~   49 (237)
T TIGR00968        21 LEVPTGSLVALLGPSGSGKSTLLRIIAGL   49 (237)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999999999999864

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=95.77  E-value=0.0084  Score=54.39  Aligned_cols=29  Identities=10%  Similarity=0.141  Sum_probs=26.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         26 LDFYPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            55789999999999999999999999753

>PRK14531 adenylate kinase; Provisional

Probab=95.77  E-value=0.0087  Score=52.10  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=23.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +|+.|+|+||+||||++..|+..-+.
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~   28 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGL   28 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            68999999999999999999988754

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.77  E-value=0.0083  Score=54.63  Aligned_cols=30  Identities=10%  Similarity=0.170  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         28 IKILKNSITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            568899999999999999999999998653

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=95.76  E-value=0.0084  Score=54.01  Aligned_cols=30  Identities=20%  Similarity=0.293  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus         6 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184         6 LTIQQGEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998654

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.76  E-value=0.0089  Score=54.24  Aligned_cols=30  Identities=10%  Similarity=0.176  Sum_probs=26.9

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.|.+|+..+|+|++|+|||||+..|+..
T Consensus        23 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (250)
T PRK14266         23 NLDIPKNSVTALIGPSGCGKSTFIRTLNRM   52 (250)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            356889999999999999999999999854

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.76  E-value=0.0084  Score=55.20  Aligned_cols=29  Identities=14%  Similarity=0.200  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        42 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         42 MDIEKHAVTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            56789999999999999999999999863

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=95.75  E-value=0.011  Score=57.20  Aligned_cols=33  Identities=15%  Similarity=0.210  Sum_probs=30.1

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +|.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        15 ~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~iaGl   47 (352)
T PRK11144         15 LTVNLTLPAQGITAIFGRSGAGKTSLINAISGL   47 (352)
T ss_pred             EEEEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            477788999999999999999999999999864

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.75  E-value=0.0089  Score=55.14  Aligned_cols=31  Identities=23%  Similarity=0.213  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        29 sl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   59 (269)
T PRK13648         29 SFNIPKGQWTSIVGHNGSGKSTIAKLMIGIE   59 (269)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999999999998753

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.75  E-value=0.0041  Score=62.50  Aligned_cols=59  Identities=20%  Similarity=0.291  Sum_probs=49.6

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|-..-        -++.|.+++||...++.+...|||+|+.  ..||+|.+++|.+++||-
T Consensus       240 VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~--~~GSITai~tVl~~gdD~  306 (463)
T PRK09280        240 VLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITST--KKGSITSVQAVYVPADDL  306 (463)
T ss_pred             eEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHHHHHHhcCC--CCCceeEEEEEECcCCCC
Confidence            4555678875532        3589999999999999999999999984  589999999999999984

>PHA00729 NTP-binding motif containing protein

Probab=95.74  E-value=0.0042  Score=56.95  Aligned_cols=35  Identities=17%  Similarity=0.180  Sum_probs=27.2

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++.|...+. .+++|+|+||+|||||+..|++..+
T Consensus         8 ~~~~l~~~~f-~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          8 IVSAYNNNGF-VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHhcCCe-EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444444444 4899999999999999999999863

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=95.74  E-value=0.0089  Score=53.35  Aligned_cols=30  Identities=10%  Similarity=0.159  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        35 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   64 (226)
T cd03248          35 FTLHPGEVTALVGPSGSGKSTVVALLENFY   64 (226)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            567899999999999999999999998654

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=95.74  E-value=0.0085  Score=54.98  Aligned_cols=30  Identities=10%  Similarity=0.275  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   52 (258)
T PRK13548         23 LTLRPGEVVAILGPNGAGKSTLLRALSGEL   52 (258)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998754

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.74  E-value=0.037  Score=49.33  Aligned_cols=31  Identities=13%  Similarity=0.261  Sum_probs=26.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccCC
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMPG   92 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~   92 (293)
                      .|+.|+|+||+||||++..|+..-+..++..
T Consensus         1 ~~I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          1 MRLILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            4799999999999999999999887655543

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.74  E-value=0.0086  Score=55.47  Aligned_cols=30  Identities=13%  Similarity=0.138  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   57 (280)
T PRK13649         28 LTIEDGSYTAFIGHTGSGKSTIMQLLNGLH   57 (280)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999998653

>PRK06217 hypothetical protein; Validated

Probab=95.73  E-value=0.009  Score=51.95  Aligned_cols=37  Identities=14%  Similarity=0.166  Sum_probs=29.6

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccCCccccCC
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD   98 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~   98 (293)
                      +||.|+|.+|+|||||+.+|+...+...+..|.+...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~   38 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWL   38 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeec
Confidence            5799999999999999999999887655555554443

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.73  E-value=0.0087  Score=52.79  Aligned_cols=31  Identities=13%  Similarity=0.172  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|.|++|+|||||+..|+...
T Consensus        21 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         21 SFTLNAGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             eEEECCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999998754

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.73  E-value=0.0092  Score=54.79  Aligned_cols=30  Identities=7%  Similarity=0.201  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         25 LELKPGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998654

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=95.73  E-value=0.0086  Score=52.63  Aligned_cols=30  Identities=10%  Similarity=0.237  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|++.+|.|++|+|||||+..|+.-.
T Consensus        30 ~~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          30 GKAKPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999997643

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=95.72  E-value=0.009  Score=54.18  Aligned_cols=30  Identities=13%  Similarity=0.243  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        22 LDIPKNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            568899999999999999999999998643

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.72  E-value=0.0093  Score=51.22  Aligned_cols=30  Identities=20%  Similarity=0.314  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        23 ~~i~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          23 LTIKPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999999999998764

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=95.72  E-value=0.0088  Score=52.74  Aligned_cols=30  Identities=17%  Similarity=0.274  Sum_probs=26.9

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+..
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          20 NLTIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             ceEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            356889999999999999999999998764

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=95.71  E-value=0.0095  Score=54.95  Aligned_cols=30  Identities=7%  Similarity=0.149  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        41 l~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         41 MQFEKNKITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            678899999999999999999999998653

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=95.71  E-value=0.0083  Score=55.20  Aligned_cols=30  Identities=17%  Similarity=0.255  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|++++|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   57 (265)
T PRK10253         28 VEIPDGHFTAIIGPNGCGKSTLLRTLSRLM   57 (265)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            568899999999999999999999997653

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.71  E-value=0.0093  Score=54.20  Aligned_cols=28  Identities=11%  Similarity=0.162  Sum_probs=26.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         24 MEIEEKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhh
Confidence            5688999999999999999999999975

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.71  E-value=0.0089  Score=54.39  Aligned_cols=29  Identities=14%  Similarity=0.205  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+.++|+|++|+|||||+..|+.-
T Consensus        25 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   53 (252)
T PRK14256         25 MDFPENSVTAIIGPSGCGKSTVLRSINRM   53 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            45789999999999999999999999864

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=95.71  E-value=0.0091  Score=53.54  Aligned_cols=29  Identities=14%  Similarity=0.244  Sum_probs=26.2

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.+|+.++|+|++|+|||||+..|+...
T Consensus         2 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         2 SADKGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            47799999999999999999999998754

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.70  E-value=0.0089  Score=55.76  Aligned_cols=30  Identities=3%  Similarity=0.029  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        32 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         32 LTFKKNKVTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            578899999999999999999999998754

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=95.70  E-value=0.0089  Score=56.28  Aligned_cols=30  Identities=23%  Similarity=0.314  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        25 l~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        25 FTIARGECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998643

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=95.70  E-value=0.01  Score=52.10  Aligned_cols=31  Identities=6%  Similarity=0.197  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        20 SFTLNAGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999987653

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=95.69  E-value=0.0092  Score=53.98  Aligned_cols=30  Identities=10%  Similarity=0.169  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        42 ~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          42 FTIEKGEIVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            567899999999999999999999998654

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.68  E-value=0.0087  Score=55.27  Aligned_cols=30  Identities=7%  Similarity=0.042  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         22 LDFSLSPVTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            568899999999999999999999987643

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.68  E-value=0.0096  Score=55.04  Aligned_cols=30  Identities=17%  Similarity=0.243  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        30 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (271)
T PRK13632         30 FEINEGEYVAILGHNGSGKSTISKILTGLL   59 (271)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998754

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=95.68  E-value=0.0093  Score=54.66  Aligned_cols=29  Identities=17%  Similarity=0.235  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+.++|+|++|+|||||+..|+..
T Consensus        34 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         34 LDIAKNQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            56889999999999999999999999854

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=95.68  E-value=0.0052  Score=62.43  Aligned_cols=61  Identities=26%  Similarity=0.475  Sum_probs=51.5

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++...-.        ++.|.+++||...++.+...+||+|++..  .-||+|.+++|.+++||-
T Consensus       256 VLli~DdlTr~A~A~REisl~~gepPgr~gyP~~vf~~~s~LlERag~~~~~~~~GSITal~~V~~~~dD~  326 (502)
T PRK09281        256 ALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSLTALPIIETQAGDV  326 (502)
T ss_pred             EEEEecCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhhccCCCCCccEEEEEEEECCCCCC
Confidence            56667888866433        48999999999999999999999999864  479999999999999983

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.68  E-value=0.0087  Score=52.93  Aligned_cols=30  Identities=7%  Similarity=0.259  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          28 GVVKPGEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             EEECCCcEEEEECCCCCCHHHHHHHhcccC
Confidence            567899999999999999999999988754

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.68  E-value=0.0092  Score=54.23  Aligned_cols=30  Identities=3%  Similarity=0.067  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        26 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (255)
T PRK11300         26 LEVREQEIVSLIGPNGAGKTTVFNCLTGFY   55 (255)
T ss_pred             eEEcCCeEEEEECCCCCCHHHHHHHHhCCc
Confidence            568899999999999999999999998653

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=95.67  E-value=0.0045  Score=61.80  Aligned_cols=60  Identities=25%  Similarity=0.408  Sum_probs=49.6

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+... .||+|.+++|.+++||-
T Consensus       247 Vll~~Dsltr~a~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~~~~-~GSIT~~~tVl~~~dD~  314 (434)
T PRK07196        247 VLLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRLAESAGNSSG-NGTMTAIYTVLAEGDDQ  314 (434)
T ss_pred             EEEeecchhHHHhhhhHHHHhcCCCCcccCcCHHHHHHhHHHHHHhhcCCC-CEEeeeeeEEEccCCCC
Confidence            44446777755333        48899999999999999999999999843 59999999999999983

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.67  E-value=0.0043  Score=59.74  Aligned_cols=58  Identities=28%  Similarity=0.436  Sum_probs=48.2

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDV  289 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~  289 (293)
                      |++--||++-..-.        ++.|.+++||...++.+..+|||+|+..  .||+|.++++.++++|
T Consensus       161 Vll~~Dsltr~a~A~rei~~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~--~GSIT~i~tv~~~gdd  226 (326)
T cd01136         161 VLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSD--KGSITAFYTVLVEGDD  226 (326)
T ss_pred             eEEEeccchHHHHHHHHHHHhcCCCCCcCCcChHHHHHhHHHHHHhcCCC--CCCeeeeeeeeecCCC
Confidence            45556777754322        4889999999999999999999999975  4999999999999877

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=95.66  E-value=0.0092  Score=54.92  Aligned_cols=32  Identities=19%  Similarity=0.291  Sum_probs=28.0

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        30 isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T TIGR02769        30 VSLSIEEGETVGLLGRSGCGKSTLARLLLGLE   61 (265)
T ss_pred             ceeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33678999999999999999999999998753

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.66  E-value=0.0098  Score=52.44  Aligned_cols=30  Identities=20%  Similarity=0.293  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        29 l~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          29 FKVKAGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            567899999999999999999999998653

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.66  E-value=0.01  Score=53.99  Aligned_cols=29  Identities=10%  Similarity=0.107  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+..
T Consensus        26 ~~i~~Ge~~~I~G~nGsGKSTLl~~i~G~   54 (251)
T PRK14244         26 LDIYKREVTAFIGPSGCGKSTFLRCFNRM   54 (251)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            56889999999999999999999999865

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=95.65  E-value=0.0097  Score=57.65  Aligned_cols=32  Identities=16%  Similarity=0.274  Sum_probs=28.5

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   52 (353)
T PRK10851         21 ISLDIPSGQMVALLGPSGSGKTTLLRIIAGLE   52 (353)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44678899999999999999999999999854

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.65  E-value=0.0097  Score=53.95  Aligned_cols=30  Identities=13%  Similarity=0.161  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (249)
T PRK14253         24 LPIPARQVTALIGPSGCGKSTLLRCLNRMN   53 (249)
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            568899999999999999999999998653

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=95.65  E-value=0.0097  Score=57.66  Aligned_cols=31  Identities=10%  Similarity=0.253  Sum_probs=27.5

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        25 isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl   55 (351)
T PRK11432         25 LNLTIKQGTMVTLLGPSGCGKTTVLRLVAGL   55 (351)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHHCC
Confidence            3466889999999999999999999999864

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.65  E-value=0.0098  Score=55.55  Aligned_cols=30  Identities=7%  Similarity=0.152  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~   57 (287)
T PRK13641         28 FELEEGSFVALVGHTGSGKSTLMQHFNALL   57 (287)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998654

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.64  E-value=0.01  Score=54.32  Aligned_cols=29  Identities=10%  Similarity=0.186  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+.++|+|++|+|||||+..|+..
T Consensus        33 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   61 (258)
T PRK14268         33 MQIPKNSVTALIGPSGCGKSTFIRCLNRM   61 (258)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            56889999999999999999999999853

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=95.64  E-value=0.0096  Score=55.00  Aligned_cols=30  Identities=13%  Similarity=0.286  Sum_probs=27.0

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|++++|.|++|+|||||+..|+..
T Consensus        32 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   61 (268)
T PRK10419         32 SLSLKSGETVALLGRSGCGKSTLARLLVGL   61 (268)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            367889999999999999999999999764

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=95.63  E-value=0.01  Score=54.71  Aligned_cols=29  Identities=17%  Similarity=0.186  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        31 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         31 LDIPKNQITAFIGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            56789999999999999999999999853

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=95.62  E-value=0.011  Score=54.81  Aligned_cols=30  Identities=13%  Similarity=0.177  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        45 l~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         45 LDIHENEVTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            567899999999999999999999998753

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.62  E-value=0.01  Score=53.88  Aligned_cols=29  Identities=17%  Similarity=0.260  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   53 (252)
T PRK14272         25 LDVQRGTVNALIGPSGCGKTTFLRAINRM   53 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            45889999999999999999999999875

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=95.62  E-value=0.01  Score=54.22  Aligned_cols=30  Identities=13%  Similarity=0.196  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        24 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   53 (254)
T PRK10418         24 LTLQRGRVLALVGGSGSGKSLTCAAALGIL   53 (254)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998654

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=95.62  E-value=0.009  Score=54.19  Aligned_cols=29  Identities=21%  Similarity=0.311  Sum_probs=26.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        28 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         28 LSINKGEIHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             eEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            45789999999999999999999998763

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=95.62  E-value=0.01  Score=56.74  Aligned_cols=35  Identities=23%  Similarity=0.387  Sum_probs=29.4

Q ss_pred             eeeec-ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVM-NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l-~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++|-+ +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        22 ~l~~vsl~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         22 AVDRVSMTLTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EEeeeEEEECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            44433 478999999999999999999999998753

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

Probab=95.61  E-value=0.033  Score=55.22  Aligned_cols=27  Identities=19%  Similarity=0.220  Sum_probs=24.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ..-+.|.|+.|+|||||++.+++.+.+
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~  139 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALA  139 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHh
Confidence            556889999999999999999999853

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=95.61  E-value=0.0053  Score=61.06  Aligned_cols=56  Identities=32%  Similarity=0.498  Sum_probs=46.8

Q ss_pred             cCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         233 PNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       233 ~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      --||++-..-        -++.|.+++||...++.+...|||+|+  ...||+|.+++|.+++||-
T Consensus       240 ~~Dsltr~a~A~rei~l~~ge~P~~~gyp~~~f~~l~~l~ERag~--~~~GSIT~~~tv~~~~dd~  303 (422)
T TIGR02546       240 MMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLPRLLERAGN--GEKGSITALYTVLVEGDDM  303 (422)
T ss_pred             EEeCchHHHHHHHHHHHhcCCCCcccccChhHHHHhHHHHHHhcC--CCCCceeEEEEEeccCCCC
Confidence            3567764422        258899999999999999999999998  4689999999999998874

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.61  E-value=0.011  Score=53.69  Aligned_cols=30  Identities=7%  Similarity=0.100  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        25 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14251         25 LDFEEKELTALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            567899999999999999999999998653

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=95.61  E-value=0.0055  Score=60.81  Aligned_cols=59  Identities=25%  Similarity=0.362  Sum_probs=49.7

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+  ...||+|.+++|.+++||-
T Consensus       229 Vll~~Dsltr~A~A~rEisl~~ge~P~~~gyp~~~f~~l~~l~ERag~--~~~GSIT~~~tVl~~gdD~  295 (413)
T TIGR03497       229 VLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGN--SQKGSITGFYTVLVDGDDM  295 (413)
T ss_pred             EEEEEcCcHHHHHHHHHHHHhcCCCCCCCCcCchHHHHhHHHHHHhcC--CCCcceeEEEEEEccCCCC
Confidence            55556788765433        48899999999999999999999998  4689999999999998873

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.61  E-value=0.011  Score=53.89  Aligned_cols=28  Identities=14%  Similarity=0.232  Sum_probs=26.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+..+|+|++|+|||||+..|+.
T Consensus        27 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         27 ISIPKNRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             EEECCCcEEEEECCCCCCHHHHHHHHhc
Confidence            5678999999999999999999999985

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.60  E-value=0.011  Score=52.45  Aligned_cols=33  Identities=15%  Similarity=0.253  Sum_probs=29.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        16 ~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        16 EFDLNVADGEIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             eeEEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            455778999999999999999999999998654

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.60  E-value=0.0095  Score=55.68  Aligned_cols=30  Identities=17%  Similarity=0.250  Sum_probs=27.4

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .=+.+.+|+-.+|+||.|+|||||+..|++
T Consensus        21 ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          21 LSFSIPKGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             ceEEecCCcEEEEECCCCCCHHHHHHHHhc
Confidence            346788999999999999999999999998

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.60  E-value=0.0055  Score=61.44  Aligned_cols=61  Identities=30%  Similarity=0.372  Sum_probs=51.3

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...+||+|+...+.||+|.++++.+++||-
T Consensus       256 Vll~~DslTr~A~A~rEisl~~ge~P~~~gyp~~vf~~l~~l~ERag~~~~~~GSIT~~~tvl~~~dd~  324 (450)
T PRK06002        256 VLLIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSELPRLLERAGPGAEGGGSITGIFSVLVDGDDH  324 (450)
T ss_pred             EEEeccchHHHHHHHHHHHHhcCCCCccccCCccHHHHhhHHHHHhccCCCCCeeeeEEEEEEecCCCC
Confidence            45556777755332        48899999999999999999999999877799999999999999884

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.60  E-value=0.011  Score=53.64  Aligned_cols=29  Identities=14%  Similarity=0.178  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         23 MQIEQNKITALIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            66789999999999999999999999864

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.58  E-value=0.01  Score=53.42  Aligned_cols=29  Identities=17%  Similarity=0.447  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+.++|+|++|+|||||+..|+..
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (237)
T PRK11614         26 LHINQGEIVTLIGANGAGKTTLLGTLCGD   54 (237)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            56889999999999999999999998754

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.57  E-value=0.0063  Score=61.61  Aligned_cols=59  Identities=22%  Similarity=0.304  Sum_probs=50.0

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...+||+|+..  .||+|.+++|.+++||-
T Consensus       264 VLll~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~LlERaG~~~--~GSITai~tVl~~gdD~  330 (494)
T CHL00060        264 VLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITSTK--EGSITSIQAVYVPADDL  330 (494)
T ss_pred             EEEEcccchHHHHHHHHHHHhcCCCCCCCCcCCCHHHHhHHHHHhccCCC--CCCeeEEEEEECCCCCC
Confidence            45556788766433        4899999999999999999999999864  69999999999999983

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=95.57  E-value=0.011  Score=54.60  Aligned_cols=33  Identities=21%  Similarity=0.262  Sum_probs=28.4

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        42 ~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~   74 (269)
T cd03294          42 DVSLDVREGEIFVIMGLSGSGKSTLLRCINRLI   74 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            334678899999999999999999999998653

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=95.57  E-value=0.01  Score=57.50  Aligned_cols=32  Identities=13%  Similarity=0.216  Sum_probs=28.2

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+..+|+|++|+|||||+..|+.-.
T Consensus        23 vsl~i~~Ge~~~llG~sGsGKSTLLr~iaGl~   54 (356)
T PRK11650         23 IDLDVADGEFIVLVGPSGCGKSTLLRMVAGLE   54 (356)
T ss_pred             eeEEEcCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            44678899999999999999999999998743

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.56  E-value=0.01  Score=52.35  Aligned_cols=28  Identities=7%  Similarity=0.179  Sum_probs=24.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+| +++|+|++|+|||||+..|+.-
T Consensus        21 ~~i~~g-~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          21 LTLGPG-MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             EEEcCC-cEEEECCCCCCHHHHHHHHhCC
Confidence            457789 9999999999999999999864

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.56  E-value=0.012  Score=49.50  Aligned_cols=33  Identities=12%  Similarity=0.236  Sum_probs=28.1

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.-+.+.+|+..+|.|++|+|||+|+..|+...
T Consensus        17 ~~~~~i~~g~~~~i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          17 NVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334568899999999999999999999997654

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14530 adenylate kinase; Provisional

Probab=95.56  E-value=0.011  Score=52.71  Aligned_cols=28  Identities=14%  Similarity=0.336  Sum_probs=24.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .|-++.|+|+||+||||++..|++.-+.
T Consensus         2 ~~~~I~i~G~pGsGKsT~~~~La~~~~~   29 (215)
T PRK14530          2 SQPRILLLGAPGAGKGTQSSNLAEEFGV   29 (215)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3669999999999999999999988754

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=95.56  E-value=0.012  Score=52.98  Aligned_cols=29  Identities=14%  Similarity=0.311  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|.|++|+|||||+..|+.-
T Consensus        43 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          43 FEVPRGERIGLIGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            57889999999999999999999999864

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.55  E-value=0.011  Score=55.18  Aligned_cols=32  Identities=19%  Similarity=0.172  Sum_probs=28.3

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.|.+|+.++|+|++|+|||||+..|+..
T Consensus        57 ~vsl~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl   88 (286)
T PRK14275         57 KVNADILSKYVTAIIGPSGCGKSTFLRAINRM   88 (286)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            34468899999999999999999999999863

>PRK08149 ATP synthase SpaL; Validated

Probab=95.55  E-value=0.0062  Score=60.70  Aligned_cols=59  Identities=27%  Similarity=0.477  Sum_probs=49.6

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|...-.        ++.|.+++||...++.+...|||+|+..  -||+|.+++|.+++||-
T Consensus       243 Vll~~DslTr~A~A~rEi~l~~ge~P~~~Gyp~~vfs~l~~l~ERag~~~--~GSIT~~~tVl~~~dD~  309 (428)
T PRK08149        243 VVLFIDSMTRYARALRDVALAAGELPARRGYPASVFDSLPRLLERPGATL--AGSITAFYTVLLESEEE  309 (428)
T ss_pred             EEEEccchHHHHHHHHHhHhhcCCCCcccccCccHHHHHHHHHHhccCCC--CCCceEEEEEEecCCCC
Confidence            45556777765433        4889999999999999999999999985  59999999999999983

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.54  E-value=0.011  Score=54.16  Aligned_cols=29  Identities=17%  Similarity=0.279  Sum_probs=26.0

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          21 SISESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CcCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999999998754

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=95.54  E-value=0.011  Score=53.01  Aligned_cols=31  Identities=16%  Similarity=0.292  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -+.+.+|+..+|.|++|+|||||+..|+...
T Consensus        27 sl~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          27 SLHVESGQVMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             eEEEcCCeEEEEECCCCCCHHHHHHHHhCcc
Confidence            4568899999999999999999999998654

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

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

Probab=95.54  E-value=0.039  Score=58.51  Aligned_cols=29  Identities=14%  Similarity=0.284  Sum_probs=24.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++-..++|.||+|+|||||+..|++...
T Consensus        49 ~~~~~slLL~GPpGtGKTTLA~aIA~~~~   77 (725)
T PRK13341         49 ADRVGSLILYGPPGVGKTTLARIIANHTR   77 (725)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            35556899999999999999999998763

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.54  E-value=0.012  Score=53.59  Aligned_cols=29  Identities=10%  Similarity=0.130  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        25 l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   53 (251)
T PRK14270         25 LPIYENKITALIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            45789999999999999999999999864

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.54  E-value=0.011  Score=55.32  Aligned_cols=32  Identities=9%  Similarity=0.222  Sum_probs=28.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.|.+|++++|+|++|+|||||+..|+.-
T Consensus        24 ~vsl~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl   55 (288)
T PRK13643         24 DIDLEVKKGSYTALIGHTGSGKSTLLQHLNGL   55 (288)
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHHHHHhcC
Confidence            44567889999999999999999999999864

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=95.53  E-value=0.012  Score=54.21  Aligned_cols=30  Identities=10%  Similarity=0.102  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|-+|+.++|+|++|+|||||+..|+...
T Consensus        40 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   69 (267)
T PRK14235         40 LDIPEKTVTAFIGPSGCGKSTFLRCLNRMN   69 (267)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            567899999999999999999999998753

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.53  E-value=0.011  Score=55.08  Aligned_cols=30  Identities=13%  Similarity=0.216  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~   57 (286)
T PRK13646         28 TEFEQGKYYAIVGQTGSGKSTLIQNINALL   57 (286)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998754

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.53  E-value=0.048  Score=54.47  Aligned_cols=27  Identities=7%  Similarity=0.112  Sum_probs=23.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++..++++|++|+||||++..++...
T Consensus       221 ~~~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        221 NQRKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356679999999999999999999754

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=95.52  E-value=0.011  Score=57.32  Aligned_cols=30  Identities=17%  Similarity=0.265  Sum_probs=27.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .=+.|..|.-+.|+||+|||||||+.+||-
T Consensus        22 i~l~i~~Gef~vllGPSGcGKSTlLr~IAG   51 (338)
T COG3839          22 VNLDIEDGEFVVLLGPSGCGKSTLLRMIAG   51 (338)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            445789999999999999999999999985

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.52  E-value=0.012  Score=54.61  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=26.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        40 s~~i~~Ge~~~IiG~nGsGKSTLl~~l~G   68 (274)
T PRK14265         40 HLKIPAKKIIAFIGPSGCGKSTLLRCFNR   68 (274)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            35688999999999999999999999984

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

Probab=95.51  E-value=0.069  Score=52.23  Aligned_cols=94  Identities=12%  Similarity=0.120  Sum_probs=61.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc---chhHHHHHHhhhhCCccccEEEEee
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN---METARFFKQDFEENGSMENVCLFLN  138 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer---~e~~~~~~~~l~~~g~~~~tvvv~s  138 (293)
                      .++.|.|++|+|||.++..++++....           .+...++|+=|=+-   ......+.+.+.             
T Consensus        43 ~n~~iyG~~GTGKT~~~~~v~~~l~~~-----------~~~~~~~yINc~~~~t~~~i~~~i~~~~~-------------   98 (366)
T COG1474          43 SNIIIYGPTGTGKTATVKFVMEELEES-----------SANVEVVYINCLELRTPYQVLSKILNKLG-------------   98 (366)
T ss_pred             ccEEEECCCCCCHhHHHHHHHHHHHhh-----------hccCceEEEeeeeCCCHHHHHHHHHHHcC-------------
Confidence            358999999999999999999987532           12222677655443   345555555442             


Q ss_pred             CCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         139 LANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       139 tsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                         ..|.........=..+-+++..+ ++.++|++|++-.+....
T Consensus        99 ---~~p~~g~~~~~~~~~l~~~~~~~-~~~~IvvLDEid~L~~~~  139 (366)
T COG1474          99 ---KVPLTGDSSLEILKRLYDNLSKK-GKTVIVILDEVDALVDKD  139 (366)
T ss_pred             ---CCCCCCCchHHHHHHHHHHHHhc-CCeEEEEEcchhhhcccc
Confidence               33443444444444556777776 899999999987765443

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.51  E-value=0.012  Score=54.72  Aligned_cols=33  Identities=9%  Similarity=0.122  Sum_probs=28.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.+|+.++|+|++|+|||||+..|+...
T Consensus        39 ~vs~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   71 (276)
T PRK14271         39 QVSMGFPARAVTSLMGPTGSGKTTFLRTLNRMN   71 (276)
T ss_pred             eeEEEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            334568899999999999999999999998643

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=95.51  E-value=0.012  Score=57.06  Aligned_cols=32  Identities=13%  Similarity=0.245  Sum_probs=28.0

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+..|+..+|+|++|+|||||+..|+--.
T Consensus        23 vs~~i~~Ge~~~l~GpsGsGKSTLLr~iaGl~   54 (353)
T TIGR03265        23 ISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLE   54 (353)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            44567899999999999999999999998753

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=95.51  E-value=0.011  Score=54.08  Aligned_cols=30  Identities=10%  Similarity=0.275  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (262)
T PRK09984         25 LNIHHGEMVALLGPSGSGKSTLLRHLSGLI   54 (262)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            457899999999999999999999998654

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=95.51  E-value=0.012  Score=49.54  Aligned_cols=30  Identities=17%  Similarity=0.281  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+-+|+..+|+|++|+|||||+..|+...
T Consensus        21 ~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          21 LTINPGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            357799999999999999999999997654

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=95.50  E-value=0.011  Score=54.94  Aligned_cols=29  Identities=10%  Similarity=0.228  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|+..+|+|++|+|||||+..|+..
T Consensus        22 l~i~~Ge~~~l~G~nGsGKSTLl~~laG~   50 (272)
T PRK13547         22 LRIEPGRVTALLGRNGAGKSTLLKALAGD   50 (272)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999764

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=95.50  E-value=0.012  Score=54.60  Aligned_cols=33  Identities=15%  Similarity=0.177  Sum_probs=29.0

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.+|++++|+|++|+|||||+..|+...
T Consensus        42 ~is~~i~~Ge~~~liG~NGsGKSTLlk~L~Gl~   74 (264)
T PRK13546         42 DISLKAYEGDVIGLVGINGSGKSTLSNIIGGSL   74 (264)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            455678899999999999999999999998754

>PRK06820 type III secretion system ATPase; Validated

Probab=95.50  E-value=0.0064  Score=60.84  Aligned_cols=60  Identities=27%  Similarity=0.377  Sum_probs=50.2

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...++.+...+||+|+.  ..||+|.+++|.+++||-
T Consensus       254 ~VLl~~Dsltr~A~A~REisl~~gepP~~~GYP~~vf~~l~~L~ERag~~--~~GSIT~i~tVl~~gdD~  321 (440)
T PRK06820        254 KVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGNS--DRGSITAFYTVLVEGDDM  321 (440)
T ss_pred             CEEEEccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC--CCcceeEEEEEEccCCCC
Confidence            455566787755333        488999999999999999999999995  589999999999998873

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.49  E-value=0.0061  Score=60.93  Aligned_cols=59  Identities=31%  Similarity=0.452  Sum_probs=49.3

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|-..-        -++.|.+++||...++.+...|||+|+.  ..||+|.+++|.+++||-
T Consensus       254 Vll~~DslTR~A~A~REisl~~gepP~~~gyp~svfs~l~~l~ERaG~~--~~GSIT~i~tVl~~gdD~  320 (439)
T PRK06936        254 VLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMERAGQS--DKGSITALYTVLVEGDDM  320 (439)
T ss_pred             EEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC--CCcceeeeEEEEccCCCC
Confidence            4555677775532        2589999999999999999999999974  589999999999998873

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=95.49  E-value=0.012  Score=54.22  Aligned_cols=31  Identities=16%  Similarity=0.279  Sum_probs=27.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        33 sl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~   63 (267)
T PRK15112         33 SFTLREGQTLAIIGENGSGKSTLAKMLAGMI   63 (267)
T ss_pred             eEEecCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999999998754

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.48  E-value=0.013  Score=52.04  Aligned_cols=30  Identities=23%  Similarity=0.327  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+...
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   54 (221)
T cd03244          25 FSIKPGEKVGIVGRTGSGKSSLLLALFRLV   54 (221)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999999999998653

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.48  E-value=0.012  Score=51.58  Aligned_cols=28  Identities=7%  Similarity=0.208  Sum_probs=25.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+.++|.|++|+|||||+..|+.
T Consensus        28 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          28 GYVKPGTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhC
Confidence            4688999999999999999999999985

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0731|consensus

Probab=95.48  E-value=0.026  Score=59.86  Aligned_cols=92  Identities=15%  Similarity=0.141  Sum_probs=65.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDP  143 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~  143 (293)
                      ++|+||||||||-|+..+|-.++      -.+++.+.+.++=+|++.|  ...++++...-+.   ..-+++|..--|..
T Consensus       347 vLL~GPPGTGKTLLAKAiAGEAg------VPF~svSGSEFvE~~~g~~--asrvr~lf~~ar~---~aP~iifideida~  415 (774)
T KOG0731|consen  347 VLLVGPPGTGKTLLAKAIAGEAG------VPFFSVSGSEFVEMFVGVG--ASRVRDLFPLARK---NAPSIIFIDEIDAV  415 (774)
T ss_pred             eEEECCCCCcHHHHHHHHhcccC------CceeeechHHHHHHhcccc--hHHHHHHHHHhhc---cCCeEEEecccccc
Confidence            78999999999999999998875      3455555555556666666  5555555544333   33678888888887


Q ss_pred             hhhhh------chHHHHHHHHHHHHHhcC
Q psy5595         144 TIERI------ITPRLALTTAEFLAYQCE  166 (293)
Q Consensus       144 ~~~r~------~a~~~a~tiAEyfr~~~G  166 (293)
                      ...|-      --.....++..++.++-|
T Consensus       416 ~~~r~G~~~~~~~~e~e~tlnQll~emDg  444 (774)
T KOG0731|consen  416 GRKRGGKGTGGGQDEREQTLNQLLVEMDG  444 (774)
T ss_pred             cccccccccCCCChHHHHHHHHHHHHhcC
Confidence            77772      345677889999987644

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.47  E-value=0.012  Score=54.37  Aligned_cols=29  Identities=17%  Similarity=0.352  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|-+|+..+|+|++|+|||||+..|+.-
T Consensus        34 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         34 CDIPRGKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            67889999999999999999999999864

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.47  E-value=0.0066  Score=60.64  Aligned_cols=59  Identities=29%  Similarity=0.390  Sum_probs=50.1

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDV  289 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~  289 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...|||+|+.. .-||+|.+++|.+++||
T Consensus       248 Vll~~DslTr~A~A~REi~l~~ge~P~~~Gyp~~vf~~l~~l~ERag~~~-g~GSIT~~~tVlv~gdD  314 (434)
T PRK08472        248 VLFIMDSVTRFAMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAGKEE-GKGSITAFFTVLVEGDD  314 (434)
T ss_pred             EEEecccchHHHHHHHHHHHhcCCCCCccCcCchHHHHHHHHHHHhccCC-CCceeeEeEEEEecCCC
Confidence            55667888765433        4889999999999999999999999974 38999999999999887

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=95.47  E-value=0.013  Score=53.52  Aligned_cols=29  Identities=14%  Similarity=0.235  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        23 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (255)
T PRK11231         23 LSLPTGKITALIGPNGCGKSTLLKCFARL   51 (255)
T ss_pred             eEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999764

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=95.46  E-value=0.013  Score=52.13  Aligned_cols=29  Identities=14%  Similarity=0.152  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|.|++|+|||||+..|+..
T Consensus        26 ~~i~~G~~~~I~G~nGsGKStLl~~l~G~   54 (220)
T TIGR02982        26 LEINPGEIVILTGPSGSGKTTLLTLIGGL   54 (220)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56789999999999999999999999754

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=95.46  E-value=0.012  Score=54.62  Aligned_cols=33  Identities=18%  Similarity=0.295  Sum_probs=29.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+-+|+++||+|.+|+|||||+..|+.-.
T Consensus        45 disf~i~~Ge~vGiiG~NGaGKSTLlkliaGi~   77 (249)
T COG1134          45 DISFEIYKGERVGIIGHNGAGKSTLLKLIAGIY   77 (249)
T ss_pred             CceEEEeCCCEEEEECCCCCcHHHHHHHHhCcc
Confidence            445789999999999999999999999998754

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=95.46  E-value=0.013  Score=56.22  Aligned_cols=31  Identities=13%  Similarity=0.293  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.|.+|+.++|+|++|+|||||+..|+...
T Consensus        35 sl~i~~Ge~~~IvG~sGsGKSTLl~~l~gl~   65 (327)
T PRK11308         35 SFTLERGKTLAVVGESGCGKSTLARLLTMIE   65 (327)
T ss_pred             EEEECCCCEEEEECCCCCcHHHHHHHHHcCC
Confidence            4568899999999999999999999998753

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=95.46  E-value=0.012  Score=55.70  Aligned_cols=31  Identities=19%  Similarity=0.264  Sum_probs=27.5

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.|.+|+.++|+|++|+|||||+..|+--
T Consensus        26 vsl~i~~Ge~v~iiG~nGsGKSTLl~~L~Gl   56 (305)
T PRK13651         26 VSVEINQGEFIAIIGQTGSGKTTFIEHLNAL   56 (305)
T ss_pred             eEEEEeCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3467899999999999999999999999854

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.46  E-value=0.013  Score=53.30  Aligned_cols=30  Identities=13%  Similarity=0.182  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        25 ~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14249         25 MDFPERQITAIIGPSGCGKSTLLRALNRMN   54 (251)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            457899999999999999999999998753

>PRK05748 replicative DNA helicase; Provisional

Probab=95.45  E-value=0.044  Score=54.53  Aligned_cols=41  Identities=17%  Similarity=0.272  Sum_probs=37.7

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++- +.+|+=+.|-|.||+|||+++.+|+.+++
T Consensus       187 ~TG~~~LD~~~~G~~~G~livIaarpg~GKT~~al~ia~~~a  228 (448)
T PRK05748        187 PTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVA  228 (448)
T ss_pred             cCChHHHHHhcCCCCCCceEEEEeCCCCCchHHHHHHHHHHH
Confidence            899999999874 78899999999999999999999999874

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=95.44  E-value=0.013  Score=52.72  Aligned_cols=30  Identities=13%  Similarity=0.213  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|.|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          21 LDIKEGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998764

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.44  E-value=0.0079  Score=59.81  Aligned_cols=61  Identities=28%  Similarity=0.342  Sum_probs=50.4

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||+|-..-.        ++.|.+++||...++.+...+||+|+.....||+|.+++|.+++||-
T Consensus       232 Vll~~DslTr~A~A~REisl~~gepP~~~gyp~~vf~~l~~L~ERag~~~~~~GSIT~~~tVl~~gdd~  300 (418)
T TIGR03498       232 VLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAEGKGSITGIFTVLVDGDDH  300 (418)
T ss_pred             EEEeccchhHHHHHHHHHHHhcCCCCccccCCchhhhhhhHHHHHhccCCCCCcceeeeEEEeccCCCC
Confidence            34456777755332        48899999999999999999999998766689999999999998873

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>KOG0727|consensus

Probab=95.44  E-value=0.033  Score=52.59  Aligned_cols=73  Identities=14%  Similarity=0.205  Sum_probs=50.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEE------ecCccchhHHHHHHhhhhCCcccc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFA------AMGVNMETARFFKQDFEENGSMEN  132 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~------~iGer~e~~~~~~~~l~~~g~~~~  132 (293)
                      -.-+-++++||||+|||.|+...++++..              .++-|..      -.||.++.++++.+--+++.   -
T Consensus       187 dpprgvllygppg~gktml~kava~~t~a--------------~firvvgsefvqkylgegprmvrdvfrlakena---p  249 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTTA--------------AFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENA---P  249 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccch--------------heeeeccHHHHHHHhccCcHHHHHHHHHHhccC---C
Confidence            34566899999999999999999998853              2333322      35777888888776655544   5


Q ss_pred             EEEEeeCCCCchhhhh
Q psy5595         133 VCLFLNLANDPTIERI  148 (293)
Q Consensus       133 tvvv~stsd~~~~~r~  148 (293)
                      +++|..--|.-+..|+
T Consensus       250 siifideidaiatkrf  265 (408)
T KOG0727|consen  250 SIIFIDEIDAIATKRF  265 (408)
T ss_pred             cEEEeehhhhHhhhhc
Confidence            6777766555444444

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.44  E-value=0.013  Score=54.37  Aligned_cols=30  Identities=7%  Similarity=0.160  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.|.+|+.++|+|++|+|||||+..|+..
T Consensus        22 sl~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl   51 (275)
T PRK13639         22 NFKAEKGEMVALLGPNGAGKSTLFLHFNGI   51 (275)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            367889999999999999999999999864

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.44  E-value=0.013  Score=53.75  Aligned_cols=32  Identities=9%  Similarity=0.127  Sum_probs=27.7

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|++++|+|++|+|||||+..|+..
T Consensus        34 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   65 (265)
T PRK14252         34 NINMMVHEKQVTALIGPSGCGKSTFLRCFNRM   65 (265)
T ss_pred             eeEEEEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            34456889999999999999999999999754

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.43  E-value=0.013  Score=54.72  Aligned_cols=30  Identities=17%  Similarity=0.175  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.|.+|+.++|+|++|+|||||+..|+..
T Consensus        59 s~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl   88 (285)
T PRK14254         59 SMDIPENQVTAMIGPSGCGKSTFLRCINRM   88 (285)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            357899999999999999999999999854

>PRK13808 adenylate kinase; Provisional

Probab=95.43  E-value=0.19  Score=48.71  Aligned_cols=32  Identities=16%  Similarity=0.374  Sum_probs=27.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKS   94 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~   94 (293)
                      |++|+|+||+||||++..|+..-+..++....
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is~gd   33 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYGIVQLSTGD   33 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceecccH
Confidence            79999999999999999999988877776433

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.42  E-value=0.013  Score=53.85  Aligned_cols=28  Identities=14%  Similarity=0.271  Sum_probs=25.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+.+.|+||+|+|||||+..|..
T Consensus        23 l~v~~Gevv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          23 LSVEKGEVVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             eeEcCCCEEEEECCCCCCHHHHHHHHHC
Confidence            4689999999999999999999997743

>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=95.42  E-value=0.011  Score=51.06  Aligned_cols=24  Identities=17%  Similarity=0.389  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |++|+|+||+||||++..|+..-+
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998764

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.42  E-value=0.047  Score=56.06  Aligned_cols=31  Identities=16%  Similarity=0.370  Sum_probs=27.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++.+|+.++|+|+.|+||||++..|+....
T Consensus       345 ~~l~~G~vIaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        345 DPLERGGVIALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             ccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4678899999999999999999999987653

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=95.41  E-value=0.014  Score=53.31  Aligned_cols=30  Identities=17%  Similarity=0.133  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        26 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   55 (257)
T PRK10619         26 LQANAGDVISIIGSSGSGKSTFLRCINFLE   55 (257)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999999998754

>PRK09087 hypothetical protein; Validated

Probab=95.41  E-value=0.021  Score=51.92  Aligned_cols=26  Identities=8%  Similarity=0.118  Sum_probs=22.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..+.|.|++|+|||||++.++++.+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~   69 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD   69 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC
Confidence            33589999999999999999987764

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.41  E-value=0.021  Score=51.17  Aligned_cols=46  Identities=15%  Similarity=0.247  Sum_probs=35.3

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME  115 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e  115 (293)
                      +.+|+-.+|.|+||+|||+++.+++.+..+.            .+..++|...-+..+
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~------------~g~~vly~s~E~~~~   55 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKK------------QGKPVLFFSLEMSKE   55 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh------------CCCceEEEeCCCCHH
Confidence            6789999999999999999999999887531            123566666666544

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.

>PRK06620 hypothetical protein; Validated

Probab=95.41  E-value=0.04  Score=49.67  Aligned_cols=25  Identities=4%  Similarity=-0.094  Sum_probs=22.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+.|.||+|+|||||++.+++...
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~   69 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN   69 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC
Confidence            4589999999999999999888764

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.40  E-value=0.013  Score=54.70  Aligned_cols=30  Identities=10%  Similarity=0.181  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~   57 (287)
T PRK13637         28 IEIEDGEFVGLIGHTGSGKSTLIQHLNGLL   57 (287)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            678899999999999999999999998653

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.40  E-value=0.014  Score=53.54  Aligned_cols=29  Identities=17%  Similarity=0.232  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+..
T Consensus        28 l~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   56 (259)
T PRK14260         28 MDIYRNKVTAIIGPSGCGKSTFIKTLNRI   56 (259)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            56889999999999999999999999875

>PRK02496 adk adenylate kinase; Provisional

Probab=95.39  E-value=0.24  Score=42.68  Aligned_cols=29  Identities=7%  Similarity=0.198  Sum_probs=24.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhccccc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKM   90 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~   90 (293)
                      .|+.|+|+||+||||++..|+..-+..++
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~~~~~~~i   30 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAEHLHIPHI   30 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            37899999999999999999987654444

>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=95.39  E-value=0.014  Score=46.40  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=20.1

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+|.|.+|+|||||+..+....
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            6899999999999999998874

...

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.38  E-value=0.2  Score=44.84  Aligned_cols=104  Identities=13%  Similarity=0.110  Sum_probs=66.0

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc-cchhHHHHHHh----hhhCCccccEE
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV-NMETARFFKQD----FEENGSMENVC  134 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe-r~e~~~~~~~~----l~~~g~~~~tv  134 (293)
                      ....+.|++++|.||||++..++..+.-           .+..+.+|--+=|. ...|...+.+-    +...|   +..
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g-----------~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g---~~~   86 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVG-----------HGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMG---TGF   86 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHH-----------CCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECC---CCC
Confidence            4568999999999999999988777642           11234444445555 34555555431    11111   111


Q ss_pred             EEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHH
Q psy5595         135 LFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAE  181 (293)
Q Consensus       135 vv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~  181 (293)
                      .+. +  +...+....+..++..|...... |+.-|||+|.+..-..
T Consensus        87 ~~~-~--~~~~e~~~~~~~~~~~a~~~l~~-~~ydlvVLDEi~~Al~  129 (191)
T PRK05986         87 TWE-T--QDRERDIAAAREGWEEAKRMLAD-ESYDLVVLDELTYALK  129 (191)
T ss_pred             ccc-C--CCcHHHHHHHHHHHHHHHHHHhC-CCCCEEEEehhhHHHH
Confidence            222 1  23446777888889888777776 8888999999986544

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=95.38  E-value=0.014  Score=56.07  Aligned_cols=33  Identities=15%  Similarity=0.233  Sum_probs=29.0

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.+|+.++|+|++|+|||||+..|+.-.
T Consensus        39 ~vsl~i~~Ge~~~lvG~sGsGKSTLlk~i~Gl~   71 (331)
T PRK15079         39 GVTLRLYEGETLGVVGESGCGKSTFARAIIGLV   71 (331)
T ss_pred             eEEEEEcCCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            445679999999999999999999999998643

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.38  E-value=0.014  Score=54.13  Aligned_cols=30  Identities=17%  Similarity=0.241  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (274)
T PRK13647         26 LSIPEGSKTALLGPNGAGKSTLLLHLNGIY   55 (274)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            578899999999999999999999998653

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=95.37  E-value=0.014  Score=54.78  Aligned_cols=33  Identities=15%  Similarity=0.267  Sum_probs=28.5

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|++++|+|++|+|||||+..|+...
T Consensus        55 ~vs~~i~~Ge~~~liG~NGsGKSTLl~~I~Gl~   87 (282)
T cd03291          55 NINLKIEKGEMLAITGSTGSGKTSLLMLILGEL   87 (282)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344578899999999999999999999998754

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PF13479 AAA_24: AAA domain

Probab=95.37  E-value=0.098  Score=46.83  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             CCceeeEecCCCCChhHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++.|++|.|+||+|||+++..+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC
Confidence            4679999999999999998865

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=95.35  E-value=0.013  Score=53.01  Aligned_cols=29  Identities=14%  Similarity=0.276  Sum_probs=26.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|.|++|+|||||+..|+..
T Consensus        22 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         22 LEVRPGEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45789999999999999999999998875

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.35  E-value=0.014  Score=54.08  Aligned_cols=31  Identities=19%  Similarity=0.218  Sum_probs=27.8

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.|.+|+.++|.|++|+|||||+..|+...
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (274)
T PRK13644         22 NLVIKKGEYIGIIGKNGSGKSTLALHLNGLL   52 (274)
T ss_pred             EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3678899999999999999999999998754

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=95.35  E-value=0.014  Score=54.97  Aligned_cols=29  Identities=10%  Similarity=0.141  Sum_probs=26.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        23 ~~i~~Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        23 FEAQKGRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             EEEeCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999999864

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=95.35  E-value=0.014  Score=57.17  Aligned_cols=31  Identities=13%  Similarity=0.226  Sum_probs=27.9

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+..+|+|++|+|||||+..|+--
T Consensus        33 vsl~i~~Ge~~~LlGpsGsGKSTLLr~IaGl   63 (375)
T PRK09452         33 LDLTINNGEFLTLLGPSGCGKTTVLRLIAGF   63 (375)
T ss_pred             eEEEEeCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4477899999999999999999999999863

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=95.35  E-value=0.015  Score=53.75  Aligned_cols=29  Identities=10%  Similarity=0.171  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+..+|+|++|+|||||+..|+..
T Consensus        46 ~~i~~Ge~~~I~G~nGsGKSTLl~~laGl   74 (272)
T PRK14236         46 MRIPKNRVTAFIGPSGCGKSTLLRCFNRM   74 (272)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            56789999999999999999999999865

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.34  E-value=0.015  Score=54.96  Aligned_cols=31  Identities=13%  Similarity=0.154  Sum_probs=27.6

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.|.+|+.++|+|++|+|||||+..|+..
T Consensus        64 is~~i~~Ge~~~IvG~nGsGKSTLl~~L~Gl   94 (305)
T PRK14264         64 VSMDIPEKSVTALIGPSGCGKSTFLRCLNRM   94 (305)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3467899999999999999999999999854

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.34  E-value=0.015  Score=53.45  Aligned_cols=31  Identities=19%  Similarity=0.266  Sum_probs=27.1

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |.=+.|.+|.-+.|.||+|+|||||+..|+-
T Consensus        23 ~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          23 DVNLEIEAGEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            4446799999999999999999999998764

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.34  E-value=0.023  Score=52.07  Aligned_cols=42  Identities=26%  Similarity=0.340  Sum_probs=35.9

Q ss_pred             CCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .||++.+|-++ -+.+|+=..|-|.||+|||+++.+|+.++..
T Consensus         3 ~TG~~~LD~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~   45 (259)
T PF03796_consen    3 PTGFPALDRLLGGLRPGELTVIAARPGVGKTAFALQIALNAAL   45 (259)
T ss_dssp             -SSTHHHHHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHH
Confidence            69999999886 6888999999999999999999999999864

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.33  E-value=0.015  Score=54.19  Aligned_cols=30  Identities=23%  Similarity=0.224  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~   57 (282)
T PRK13640         28 FSIPRGSWTALIGHNGSGKSTISKLINGLL   57 (282)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            457799999999999999999999998754

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.32  E-value=0.015  Score=54.09  Aligned_cols=33  Identities=18%  Similarity=0.189  Sum_probs=28.7

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (279)
T PRK13650         25 DVSFHVKQGEWLSIIGHNGSGKSTTVRLIDGLL   57 (279)
T ss_pred             eeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            334678899999999999999999999998754

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.32  E-value=0.015  Score=53.54  Aligned_cols=30  Identities=13%  Similarity=0.163  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        31 ~~i~~Ge~~~i~G~nGsGKSTLl~~iaG~~   60 (257)
T PRK14246         31 IKIPNNSIFGIMGPSGSGKSTLLKVLNRLI   60 (257)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999998653

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.31  E-value=0.0086  Score=59.94  Aligned_cols=60  Identities=32%  Similarity=0.493  Sum_probs=49.1

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||+|-..-.        ++.|.+++||...++.+..+|||+|+.  ..||+|.+++|.+++||-
T Consensus       254 ~VLl~~DslTr~A~A~REisl~~gepP~~~gyP~~vf~~l~~l~ERag~~--~~GSIT~i~tVl~~~dd~  321 (441)
T PRK09099        254 RVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAELPRLLERAGMG--ETGSITALYTVLAEDESG  321 (441)
T ss_pred             CEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHhHHHHHhhcCC--CCcchheeEEEEecCCCc
Confidence            355556787755332        488999999999999999999999964  589999999998888874

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.30  E-value=0.016  Score=53.07  Aligned_cols=29  Identities=24%  Similarity=0.397  Sum_probs=25.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ....|+.|+|+||+||||++..|+..-+.
T Consensus         4 ~~~mrIvl~G~PGsGK~T~a~~La~~~g~   32 (229)
T PTZ00088          4 KGPLKIVLFGAPGVGKGTFAEILSKKENL   32 (229)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34578999999999999999999988753

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=95.30  E-value=0.094  Score=49.17  Aligned_cols=23  Identities=9%  Similarity=-0.019  Sum_probs=18.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.|-||+|||+++.+|.....
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~   26 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLE   26 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHH
Confidence            57899999999999999988753

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=95.29  E-value=0.015  Score=45.99  Aligned_cols=24  Identities=17%  Similarity=0.415  Sum_probs=21.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |+.|+|++|+|||+|+..++....
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS-
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCC
Confidence            789999999999999999987653

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.

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=95.28  E-value=0.015  Score=53.09  Aligned_cols=30  Identities=7%  Similarity=0.116  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (256)
T TIGR03873        22 VTAPPGSLTGLLGPNGSGKSTLLRLLAGAL   51 (256)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            567899999999999999999999998654

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=95.28  E-value=0.015  Score=56.62  Aligned_cols=30  Identities=13%  Similarity=0.168  Sum_probs=27.0

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        23 sl~i~~Ge~~~l~G~nGsGKSTLL~~iaGl   52 (369)
T PRK11000         23 NLDIHEGEFVVFVGPSGCGKSTLLRMIAGL   52 (369)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            356889999999999999999999999864

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.27  E-value=0.016  Score=54.33  Aligned_cols=30  Identities=17%  Similarity=0.241  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (290)
T PRK13634         28 VSIPSGSYVAIIGHTGSGKSTLLQHLNGLL   57 (290)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            678899999999999999999999998654

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.27  E-value=0.016  Score=53.31  Aligned_cols=29  Identities=10%  Similarity=0.197  Sum_probs=26.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        29 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (261)
T PRK14263         29 VPIRKNEITGFIGPSGCGKSTVLRSLNRM   57 (261)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcc
Confidence            56889999999999999999999988754

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=95.26  E-value=0.015  Score=56.17  Aligned_cols=31  Identities=13%  Similarity=0.140  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+|++|+|||||+..|+.-.
T Consensus        25 sl~i~~Gei~gIiG~sGaGKSTLlr~I~gl~   55 (343)
T TIGR02314        25 SLHVPAGQIYGVIGASGAGKSTLIRCVNLLE   55 (343)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999999999997643

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=95.26  E-value=0.016  Score=51.29  Aligned_cols=32  Identities=16%  Similarity=0.203  Sum_probs=29.1

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+ +..+|+|++|+|||||+..|+...
T Consensus        16 ~vsl~i~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          16 KIDFDLNE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             CceEEEcc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            77789999 999999999999999999987653

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.26  E-value=0.017  Score=49.53  Aligned_cols=25  Identities=12%  Similarity=0.198  Sum_probs=22.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.+.|.|++|+|||||+..|+...
T Consensus         1 ~~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         1 GRLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            5788999999999999999998875

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=95.24  E-value=0.11  Score=46.76  Aligned_cols=34  Identities=9%  Similarity=-0.111  Sum_probs=25.4

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ..|..+.=+.+.++.|.|+.|+|||||+..|+..
T Consensus        19 pnd~~l~~~~~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          19 PNDTEIGGGGPSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             cceEEecCCCceEEEEECCCCCChHHHHHHHHHH
Confidence            4444443222478999999999999999998854

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=95.24  E-value=0.017  Score=52.83  Aligned_cols=30  Identities=23%  Similarity=0.326  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        42 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   71 (257)
T cd03288          42 AYIKPGQKVGICGRTGSGKSSLSLAFFRMV   71 (257)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHccc
Confidence            568899999999999999999999998753

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=95.23  E-value=0.016  Score=55.44  Aligned_cols=30  Identities=17%  Similarity=0.211  Sum_probs=27.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+.-.
T Consensus        28 l~i~~Ge~~~lvG~sGsGKSTL~~~l~Gll   57 (326)
T PRK11022         28 YSVKQGEVVGIVGESGSGKSVSSLAIMGLI   57 (326)
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            789999999999999999999999998754

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.23  E-value=0.017  Score=53.82  Aligned_cols=30  Identities=17%  Similarity=0.188  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+..+|+|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~   57 (279)
T PRK13635         28 FSVYEGEWVAIVGHNGSGKSTLAKLLNGLL   57 (279)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            678899999999999999999999998654

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.22  E-value=0.085  Score=49.20  Aligned_cols=49  Identities=14%  Similarity=0.122  Sum_probs=33.3

Q ss_pred             CCce-eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHH
Q psy5595          60 RGQK-IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETAR  118 (293)
Q Consensus        60 rGQr-~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~  118 (293)
                      .|.- .+|+|||++|||||+..|+|..+.    +   +||-.+.-+   +-|+||.|-+.
T Consensus       135 ~g~lntLiigpP~~GKTTlLRdiaR~~s~----g---~~~~l~kkv---~IiDersEIag  184 (308)
T COG3854         135 NGWLNTLIIGPPQVGKTTLLRDIARLLSD----G---INQFLPKKV---GIIDERSEIAG  184 (308)
T ss_pred             cCceeeEEecCCCCChHHHHHHHHHHhhc----c---ccccCCceE---EEEeccchhhc
Confidence            4544 899999999999999999998753    1   223222223   33577776654

>KOG0733|consensus

Probab=95.22  E-value=0.04  Score=57.23  Aligned_cols=140  Identities=21%  Similarity=0.262  Sum_probs=82.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDP  143 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~  143 (293)
                      +++-||||||||.|+..|+++.+..      ++.-  .+.-+|-..-||.-+..+++.++-...   .-+++|.---|.=
T Consensus       226 vLlHGPPGCGKT~lA~AiAgel~vP------f~~i--sApeivSGvSGESEkkiRelF~~A~~~---aPcivFiDeIDAI  294 (802)
T KOG0733|consen  226 VLLHGPPGCGKTSLANAIAGELGVP------FLSI--SAPEIVSGVSGESEKKIRELFDQAKSN---APCIVFIDEIDAI  294 (802)
T ss_pred             eeeeCCCCccHHHHHHHHhhhcCCc------eEee--cchhhhcccCcccHHHHHHHHHHHhcc---CCeEEEeeccccc
Confidence            7889999999999999999998642      2221  233456666777766666666544332   3567777554433


Q ss_pred             h---------hhhhchHHHHHHHHHHHHH-hcCCceEEEe-----cc----hhHHHHHHHHHhhhcCCCCCC--------
Q psy5595         144 T---------IERIITPRLALTTAEFLAY-QCEKHVLVIL-----TD----MSSYAEALREVSAAREEVPGR--------  196 (293)
Q Consensus       144 ~---------~~r~~a~~~a~tiAEyfr~-~~G~~VLli~-----Ds----ltr~a~A~reisl~~ge~p~~--------  196 (293)
                      .         ++|-.++..-..+-|--+. ..|+.||||-     |+    |-|-.+--|||.+   -.|+.        
T Consensus       295 ~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l---~vP~e~aR~~IL~  371 (802)
T KOG0733|consen  295 TPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPALRRAGRFDREICL---GVPSETAREEILR  371 (802)
T ss_pred             ccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCcccCHHHhccccccceeee---cCCchHHHHHHHH
Confidence            2         2333333333333332222 1277888884     33    3444444556544   12221        


Q ss_pred             ------------------CCCCCchhhhHHHHhhhhccc
Q psy5595         197 ------------------RGFPGYMYTNLATIYERAGRV  217 (293)
Q Consensus       197 ------------------~gyp~~lf~~la~l~ERag~~  217 (293)
                                        +--||++-.+|..|.-+|+.+
T Consensus       372 ~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~v  410 (802)
T KOG0733|consen  372 IICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFV  410 (802)
T ss_pred             HHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHH
Confidence                              234888888888887777753

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=95.22  E-value=0.018  Score=52.01  Aligned_cols=30  Identities=17%  Similarity=0.236  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|++.+|.|++|+|||||+..|+...
T Consensus        20 ~~i~~Ge~~~i~G~nG~GKStLl~~l~G~~   49 (235)
T cd03299          20 LEVERGDYFVILGPTGSGKSVLLETIAGFI   49 (235)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            678899999999999999999999987753

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=95.21  E-value=0.0076  Score=60.16  Aligned_cols=59  Identities=22%  Similarity=0.288  Sum_probs=49.4

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        ++.|.+++||...++.+...+||+|..  ..||+|.+++|.+++||-
T Consensus       247 VLl~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~~--~~GSIT~~~tVl~~gdD~  313 (433)
T PRK07594        247 VVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGMG--EKGSITAFYTVLVEGDDM  313 (433)
T ss_pred             EEEEEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhHHHhHHHHHhhcCC--CCcchheeeeeeecCCCC
Confidence            45556788765332        599999999999999999999999964  689999999999998873

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.21  E-value=0.062  Score=53.49  Aligned_cols=28  Identities=18%  Similarity=0.230  Sum_probs=24.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++.+++|+|+.|+||||++..|+.+..
T Consensus       239 ~~~~vI~LVGptGvGKTTTiaKLA~~L~  266 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTLAKMAWQFH  266 (436)
T ss_pred             cCCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4568999999999999999999998763

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=95.20  E-value=0.017  Score=55.74  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=30.1

Q ss_pred             eeeee-cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          50 RAIDV-MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        50 raID~-l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++|- =+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        55 ~~l~~is~~i~~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         55 AVVNGLSFTVASGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34533 3689999999999999999999999998754

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=95.20  E-value=0.016  Score=55.66  Aligned_cols=30  Identities=17%  Similarity=0.217  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+.-.
T Consensus        37 l~i~~Ge~~~ivG~sGsGKSTL~~~l~Gl~   66 (330)
T PRK09473         37 FSLRAGETLGIVGESGSGKSQTAFALMGLL   66 (330)
T ss_pred             EEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            578899999999999999999999998654

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=95.19  E-value=0.022  Score=55.01  Aligned_cols=33  Identities=15%  Similarity=0.168  Sum_probs=29.8

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|+..+|+|++|+|||||+..|+...
T Consensus        15 ~isl~i~~Gei~~l~G~nGsGKSTLl~~iaGl~   47 (354)
T TIGR02142        15 DADFTLPGQGVTAIFGRSGSGKTTLIRLIAGLT   47 (354)
T ss_pred             EEEEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            666889999999999999999999999998754

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.18  E-value=0.018  Score=52.93  Aligned_cols=30  Identities=13%  Similarity=0.161  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        28 ~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (261)
T PRK14258         28 MEIYQSKVTAIIGPSGCGKSTFLKCLNRMN   57 (261)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhccc
Confidence            568899999999999999999999998654

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.17  E-value=0.018  Score=53.43  Aligned_cols=30  Identities=10%  Similarity=0.144  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        25 l~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~   54 (277)
T PRK13652         25 FIAPRNSRIAVIGPNGAGKSTLFRHFNGIL   54 (277)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            678899999999999999999999998754

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

Probab=95.17  E-value=0.025  Score=53.50  Aligned_cols=25  Identities=12%  Similarity=0.320  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+++.+||+|+|||+++..+++.+.
T Consensus       152 knVLFyGppGTGKTm~Akalane~k  176 (368)
T COG1223         152 KNVLFYGPPGTGKTMMAKALANEAK  176 (368)
T ss_pred             ceeEEECCCCccHHHHHHHHhcccC
Confidence            3789999999999999999998874

>PRK14532 adenylate kinase; Provisional

Probab=95.16  E-value=0.016  Score=50.19  Aligned_cols=24  Identities=13%  Similarity=0.320  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|+|+||+||||++..|+..-+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998764

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=95.16  E-value=0.018  Score=53.93  Aligned_cols=31  Identities=19%  Similarity=0.330  Sum_probs=28.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.+|++++|+|++|+|||||+..|++-..
T Consensus        25 l~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~~   55 (275)
T cd03289          25 FSISPGQRVGLLGRTGSGKSTLLSAFLRLLN   55 (275)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhhhcC
Confidence            5789999999999999999999999987753

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=95.15  E-value=0.017  Score=54.69  Aligned_cols=30  Identities=10%  Similarity=0.170  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+..+|+|++|+|||||+..|+.-.
T Consensus        28 l~i~~Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         28 FHVQRGECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            568899999999999999999999998754

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.15  E-value=0.015  Score=58.61  Aligned_cols=32  Identities=9%  Similarity=0.238  Sum_probs=28.1

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      =+.|-+|++++|+|++|+|||||+..|.+-..
T Consensus       355 sl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       355 SLDLPPGERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35689999999999999999999999987543

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=95.11  E-value=0.017  Score=52.74  Aligned_cols=31  Identities=10%  Similarity=0.265  Sum_probs=27.2

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+..+|.|++|+|||||+..|+..
T Consensus        15 vsl~i~~Gei~~l~G~nGsGKSTLl~~l~Gl   45 (248)
T PRK03695         15 LSAEVRAGEILHLVGPNGAGKSTLLARMAGL   45 (248)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            3357889999999999999999999988754

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.10  E-value=0.077  Score=49.80  Aligned_cols=29  Identities=14%  Similarity=0.291  Sum_probs=25.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+|+.++|+||.|+||||++..++....
T Consensus       191 ~~~~~vi~~vGptGvGKTTt~~kLa~~~~  219 (282)
T TIGR03499       191 LEQGGVIALVGPTGVGKTTTLAKLAARFV  219 (282)
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35788999999999999999999998764

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=95.10  E-value=0.019  Score=55.30  Aligned_cols=31  Identities=16%  Similarity=0.167  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        25 sl~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~   55 (343)
T PRK11153         25 SLHIPAGEIFGVIGASGAGKSTLIRCINLLE   55 (343)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3578899999999999999999999998653

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=95.08  E-value=0.019  Score=55.87  Aligned_cols=31  Identities=13%  Similarity=0.232  Sum_probs=27.3

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.|.+|+..+|+|++|+|||||+..|+--
T Consensus        24 vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   54 (362)
T TIGR03258        24 LSLEIEAGELLALIGKSGCGKTTLLRAIAGF   54 (362)
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3356789999999999999999999999864

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.04  E-value=0.014  Score=49.40  Aligned_cols=22  Identities=9%  Similarity=0.190  Sum_probs=18.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|.|++++|||||+..++..
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7899999999999999999987

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.03  E-value=0.022  Score=49.86  Aligned_cols=27  Identities=15%  Similarity=0.266  Sum_probs=24.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+|+-++|.|++|+|||+|+..|++.-
T Consensus         3 ~~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          3 RRGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            479999999999999999999998864

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.03  E-value=0.044  Score=50.89  Aligned_cols=38  Identities=11%  Similarity=0.272  Sum_probs=30.7

Q ss_pred             CCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          47 SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        47 TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++++-|+  +.|-+|+.+.|+|++|+|||||+..|.....
T Consensus        18 ~aL~~Vn--l~I~~GE~VaiIG~SGaGKSTLLR~lngl~d   55 (258)
T COG3638          18 QALKDVN--LEINQGEMVAIIGPSGAGKSTLLRSLNGLVD   55 (258)
T ss_pred             eeeeeEe--EEeCCCcEEEEECCCCCcHHHHHHHHhcccC
Confidence            3344444  4678999999999999999999999988654

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.03  E-value=0.021  Score=53.05  Aligned_cols=30  Identities=23%  Similarity=0.217  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus        28 l~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (277)
T PRK13642         28 FSITKGEWVSIIGQNGSGKSTTARLIDGLF   57 (277)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            467899999999999999999999998654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.03  E-value=0.15  Score=48.16  Aligned_cols=30  Identities=7%  Similarity=0.141  Sum_probs=26.9

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+++..++|.|++|+|||||+..++....
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~   59 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELR   59 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            567899999999999999999999988764

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.02  E-value=0.019  Score=49.16  Aligned_cols=25  Identities=16%  Similarity=0.291  Sum_probs=22.8

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.+.|.|++|+|||||+..|++..
T Consensus         1 g~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHccC
Confidence            6789999999999999999998854

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.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=95.02  E-value=0.02  Score=56.01  Aligned_cols=31  Identities=16%  Similarity=0.279  Sum_probs=27.6

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        38 vsl~i~~Ge~~~llGpsGsGKSTLLr~IaGl   68 (377)
T PRK11607         38 VSLTIYKGEIFALLGASGCGKSTLLRMLAGF   68 (377)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3467889999999999999999999999864

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.02  E-value=0.02  Score=49.90  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=23.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .|+.+.|.|++|+|||||+..|+...
T Consensus         1 ~g~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          1 MGKLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            47899999999999999999997764

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.01  E-value=0.021  Score=54.52  Aligned_cols=30  Identities=7%  Similarity=0.114  Sum_probs=27.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        47 l~i~~Ge~~~I~G~nGsGKSTLl~~L~Gl~   76 (320)
T PRK13631         47 YTFEKNKIYFIIGNSGSGKSTLVTHFNGLI   76 (320)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999999999998753

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.01  E-value=0.02  Score=54.97  Aligned_cols=32  Identities=9%  Similarity=0.153  Sum_probs=28.3

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.|.+|++++|+|++|+|||+|+..|++..
T Consensus       101 is~~I~~Ge~v~IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        101 LNLDIKRNKVTAFIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            33678899999999999999999999998764

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.01  E-value=0.14  Score=45.53  Aligned_cols=26  Identities=12%  Similarity=0.003  Sum_probs=22.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ..|.-++|.||+|+|||||+.+|+..
T Consensus        23 ~~g~~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          23 EKKNGILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH
Confidence            34788899999999999999998753

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=94.99  E-value=0.022  Score=51.47  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=22.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAA   79 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~   79 (293)
                      +.+.+|+.++|+|++|+|||||+.
T Consensus        16 l~i~~Ge~~~l~G~sGsGKSTL~~   39 (226)
T cd03270          16 VDIPRNKLVVITGVSGSGKSSLAF   39 (226)
T ss_pred             eecCCCcEEEEEcCCCCCHHHHHH
Confidence            678999999999999999999974

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK03839 putative kinase; Provisional

Probab=94.99  E-value=0.02  Score=49.38  Aligned_cols=34  Identities=12%  Similarity=0.174  Sum_probs=27.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCcccc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL   96 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~   96 (293)
                      ++.|+|+||+||||++..+++..+-..+..+.++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d~~~   35 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLTEFA   35 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehhhhh
Confidence            6899999999999999999998865555444444

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.98  E-value=0.019  Score=49.24  Aligned_cols=24  Identities=17%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.|+|+||+||||++..|+..-+.
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~   25 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGF   25 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            689999999999999999987753

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.

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=94.98  E-value=0.021  Score=53.06  Aligned_cols=30  Identities=17%  Similarity=0.256  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        31 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   60 (280)
T PRK13633         31 LEVKKGEFLVILGRNGSGKSTIAKHMNALL   60 (280)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999999998654

>TIGR00235 udk uridine kinase

Probab=94.98  E-value=0.021  Score=50.64  Aligned_cols=28  Identities=29%  Similarity=0.372  Sum_probs=24.5

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+|..++|.|++|+|||||+..|+....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3688999999999999999999987653

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=94.98  E-value=0.052  Score=44.49  Aligned_cols=23  Identities=13%  Similarity=0.323  Sum_probs=21.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.|++|+|||+|+..+++..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~   24 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG   24 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            68999999999999999999884

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.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=94.95  E-value=0.019  Score=59.82  Aligned_cols=32  Identities=19%  Similarity=0.299  Sum_probs=28.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.|.+|++++|+|++|+|||||+..|+...
T Consensus        20 vs~~i~~Ge~v~LvG~NGsGKSTLLkiL~G~~   51 (638)
T PRK10636         20 ATATINPGQKVGLVGKNGCGKSTLLALLKNEI   51 (638)
T ss_pred             cEEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33578999999999999999999999998753

>PRK08506 replicative DNA helicase; Provisional

Probab=94.95  E-value=0.12  Score=52.08  Aligned_cols=41  Identities=15%  Similarity=0.247  Sum_probs=37.5

Q ss_pred             CCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+.-+|-++ -+.+|+=+.|-|.||.|||+++.+|+.++.
T Consensus       176 ~TG~~~LD~~~~G~~~G~LivIaarpg~GKT~fal~ia~~~~  217 (472)
T PRK08506        176 DTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKAL  217 (472)
T ss_pred             cCChHHHHhhcCCCCCCceEEEEcCCCCChHHHHHHHHHHHH
Confidence            89999999986 477899999999999999999999999874

>PRK08233 hypothetical protein; Provisional

Probab=94.94  E-value=0.024  Score=48.24  Aligned_cols=26  Identities=12%  Similarity=0.194  Sum_probs=22.8

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.-++|.|++|+|||||+..|+..-.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46689999999999999999998764

>PLN03073 ABC transporter F family; Provisional

Probab=94.93  E-value=0.018  Score=60.99  Aligned_cols=31  Identities=13%  Similarity=0.185  Sum_probs=28.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |.=+.|..|+|++|+|++|+|||||+..|+.
T Consensus       195 ~isl~i~~Ge~~gLvG~NGsGKSTLLr~l~g  225 (718)
T PLN03073        195 DASVTLAFGRHYGLVGRNGTGKTTFLRYMAM  225 (718)
T ss_pred             CCEEEECCCCEEEEECCCCCCHHHHHHHHcC
Confidence            4567899999999999999999999999975

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=94.93  E-value=0.023  Score=52.96  Aligned_cols=30  Identities=13%  Similarity=0.228  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.+|+.++|+|++|+|||||+..|+...
T Consensus        27 ~~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~   56 (283)
T PRK13636         27 INIKKGEVTAILGGNGAGKSTLFQNLNGIL   56 (283)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            567899999999999999999999998764

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=94.92  E-value=0.021  Score=57.57  Aligned_cols=31  Identities=13%  Similarity=0.228  Sum_probs=27.9

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|++++|+|++|+|||||+..|+..
T Consensus        19 is~~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   49 (520)
T TIGR03269        19 ISFTIEEGEVLGILGRSGAGKSVLMHVLRGM   49 (520)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHHHHHhhc
Confidence            3457889999999999999999999999876

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.92  E-value=0.028  Score=47.23  Aligned_cols=28  Identities=18%  Similarity=0.402  Sum_probs=25.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++..+.|+|++|+|||+++..++...+.
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~~   30 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLGY   30 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999999998754

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.90  E-value=0.14  Score=52.04  Aligned_cols=27  Identities=19%  Similarity=0.361  Sum_probs=23.1

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++-+++.||+|+|||+++..+++...+
T Consensus        40 ~ha~Lf~GP~GtGKTTlAriLAk~Lnc   66 (484)
T PRK14956         40 GHAYIFFGPRGVGKTTIARILAKRLNC   66 (484)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            345799999999999999999998753

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=94.89  E-value=0.02  Score=55.84  Aligned_cols=34  Identities=21%  Similarity=0.247  Sum_probs=29.6

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |.=+.+.+|+..+|+|++|+|||||+.+|+.-..
T Consensus        11 ~vs~~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~   44 (363)
T TIGR01186        11 DADLAIAKGEIFVIMGLSGSGKSTTVRMLNRLIE   44 (363)
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCC
Confidence            3446789999999999999999999999987653

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=94.89  E-value=0.47  Score=41.23  Aligned_cols=99  Identities=14%  Similarity=0.100  Sum_probs=60.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc-cchhHHHHHHhhhhCCc----cccEEEEe
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV-NMETARFFKQDFEENGS----MENVCLFL  137 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe-r~e~~~~~~~~l~~~g~----~~~tvvv~  137 (293)
                      -+-|+.++|.|||+++..++..+..          | +....+|--+=|. ...|...+.+ +.  ++    +.+...+.
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~----------~-g~~v~~vQFlKg~~~~gE~~~l~~-l~--~v~~~~~g~~~~~~   69 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALG----------H-GYRVGVVQFLKGGWKYGELKALER-LP--NIEIHRMGRGFFWT   69 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH----------C-CCeEEEEEEeCCCCccCHHHHHHh-CC--CcEEEECCCCCccC
Confidence            5678899999999999988887742          1 1223333334442 3344444433 21  10    00111111


Q ss_pred             eCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH
Q psy5595         138 NLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY  179 (293)
Q Consensus       138 stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~  179 (293)
                      .   +.+.+....+..+...|...... |+.-|||+|++..-
T Consensus        70 ~---~~~~~~~~~a~~~~~~a~~~~~~-~~~dLlVLDEi~~a  107 (159)
T cd00561          70 T---ENDEEDIAAAAEGWAFAKEAIAS-GEYDLVILDEINYA  107 (159)
T ss_pred             C---CChHHHHHHHHHHHHHHHHHHhc-CCCCEEEEechHhH
Confidence            1   23457777888888888777776 88889999999764

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK04296 thymidine kinase; Provisional

Probab=94.88  E-value=0.19  Score=44.24  Aligned_cols=26  Identities=12%  Similarity=-0.070  Sum_probs=22.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |+=.+|.|++|+|||+++..++.+..
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~   27 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYE   27 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHH
Confidence            56678999999999999998888764

>TIGR01351 adk adenylate kinases

Probab=94.87  E-value=0.019  Score=50.97  Aligned_cols=25  Identities=20%  Similarity=0.397  Sum_probs=22.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      |+.|+|+||+||||++..|+..-+.
T Consensus         1 rI~i~G~pGsGKsT~a~~La~~~g~   25 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAEKYGL   25 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCC
Confidence            6899999999999999999987654

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.

>PRK14528 adenylate kinase; Provisional

Probab=94.87  E-value=0.025  Score=49.65  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.|+|+||+||||++..|+..-+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~   26 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLS   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999987764

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.85  E-value=0.03  Score=48.88  Aligned_cols=33  Identities=15%  Similarity=0.222  Sum_probs=26.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCC
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPG   92 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~   92 (293)
                      .|+.+.|+|++|+|||||+..|+.......+.+
T Consensus         2 ~ge~i~l~G~sGsGKSTl~~~la~~l~~~~i~g   34 (176)
T PRK09825          2 AGESYILMGVSGSGKSLIGSKIAALFSAKFIDG   34 (176)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcCCEEECC
Confidence            488999999999999999999998765433333

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=94.85  E-value=0.022  Score=58.14  Aligned_cols=30  Identities=17%  Similarity=0.346  Sum_probs=27.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+.+.+|+|+.|+|.+|+|||||++-|++.
T Consensus       358 ~l~l~~GEkvAIlG~SGsGKSTllqLl~~~  387 (573)
T COG4987         358 NLTLAQGEKVAILGRSGSGKSTLLQLLAGA  387 (573)
T ss_pred             ceeecCCCeEEEECCCCCCHHHHHHHHHhc
Confidence            357999999999999999999999999973

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.81  E-value=0.023  Score=48.04  Aligned_cols=31  Identities=19%  Similarity=0.349  Sum_probs=24.0

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKS   94 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~   94 (293)
                      +.|.|++|+||||++..+++..+...+.+|.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~~D~   31 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIEGDD   31 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEeCcc
Confidence            4689999999999999999987543333333

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.

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=94.80  E-value=0.021  Score=59.32  Aligned_cols=31  Identities=6%  Similarity=0.137  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.|.+|++++|+|++|+|||||+..|+...
T Consensus        23 s~~i~~Ge~v~LvG~NGsGKSTLLriiaG~~   53 (635)
T PRK11147         23 ELHIEDNERVCLVGRNGAGKSTLMKILNGEV   53 (635)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3568899999999999999999999998754

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=94.79  E-value=0.21  Score=45.44  Aligned_cols=37  Identities=14%  Similarity=-0.098  Sum_probs=31.3

Q ss_pred             ceeeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          49 KRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        49 iraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ...-|.-+.+..|++.+|.|++|.|||+++..|+...
T Consensus        19 ~v~n~i~~~~~~g~~~~itG~N~~GKStll~~i~~~~   55 (222)
T cd03287          19 FVPNDIHLSAEGGYCQIITGPNMGGKSSYIRQVALIT   55 (222)
T ss_pred             EEEEeEEEEecCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456777778899999999999999999999888743

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	293
3vr6_D	465	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		1e-68
3gqb_B	464	Crystal Structure Of The A3b3 Complex From V-atpase		5e-68
3a5c_D	478	Inter-Subunit Interaction And Quaternary Rearrangem		1e-67
2rkw_A	469	Intermediate Position Of Atp On Its Trail To The Bi		1e-67
2c61_A	469	Crystal Structure Of The Non-Catalytic B Subunit Of		2e-67
3ssa_A	460	Crystal Structure Of Subunit B Mutant N157t Of The		8e-67
3tiv_A	460	Crystal Structure Of Subunit B Mutant N157a Of The		1e-66
3tgw_A	460	Crystal Structure Of Subunit B Mutant H156a Of The		3e-66
3vr2_D	465	Crystal Structure Of Nucleotide-free A3b3 Complex F		1e-60
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		5e-15
3nd9_A	588	Structural Characterization For The Nucleotide Bind		2e-12
3nd9_A	588	Structural Characterization For The Nucleotide Bind		2e-04
3m4y_A	588	Structural Characterization Of The Subunit A Mutant		2e-12
3m4y_A	588	Structural Characterization Of The Subunit A Mutant		2e-04
3mfy_A	588	Structural Characterization Of The Subunit A Mutant		2e-12
3mfy_A	588	Structural Characterization Of The Subunit A Mutant		2e-04
3se0_A	588	Structural Characterization Of The Subunit A Mutant		2e-12
3se0_A	588	Structural Characterization Of The Subunit A Mutant		2e-04
3sdz_A	588	Structural Characterization Of The Subunit A Mutant		2e-12
3sdz_A	588	Structural Characterization Of The Subunit A Mutant		2e-04
3ikj_A	588	Structural Characterization For The Nucleotide Bind		2e-12
3ikj_A	588	Structural Characterization For The Nucleotide Bind		2e-04
1vdz_A	588	Crystal Structure Of A-Type Atpase Catalytic Subuni		2e-12
1vdz_A	588	Crystal Structure Of A-Type Atpase Catalytic Subuni		2e-04
3qjy_A	588	Crystal Structure Of P-Loop G234a Mutant Of Subunit		2e-12
3qjy_A	588	Crystal Structure Of P-Loop G234a Mutant Of Subunit		2e-04
3qia_A	588	Crystal Structure Of P-Loop G237a Mutant Of Subunit		2e-12
3qia_A	588	Crystal Structure Of P-Loop G237a Mutant Of Subunit		2e-04
3qg1_A	588	Crystal Structure Of P-Loop G239a Mutant Of Subunit		2e-12
3qg1_A	588	Crystal Structure Of P-Loop G239a Mutant Of Subunit		2e-04
3nd8_A	588	Structural Characterization For The Nucleotide Bind		2e-12
3nd8_A	588	Structural Characterization For The Nucleotide Bind		2e-04
3i4l_A	588	Structural Characterization For The Nucleotide Bind		2e-12
3i4l_A	588	Structural Characterization For The Nucleotide Bind		2e-04
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		4e-12
3vr6_A	600	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		2e-11
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		5e-11
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		5e-11
2obl_A	347	Structural And Biochemical Analysis Of A Prototypic		6e-11
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		9e-11
3gqb_A	578	Crystal Structure Of The A3b3 Complex From V-atpase		1e-10
3vr2_A	600	Crystal Structure Of Nucleotide-free A3b3 Complex F		2e-10
3vr2_A	600	Crystal Structure Of Nucleotide-free A3b3 Complex F		6e-04
3a5c_A	578	Inter-Subunit Interaction And Quaternary Rearrangem		2e-10
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		3e-09
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		3e-09
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		3e-09
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		3e-09
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		3e-09
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		3e-09
2qe7_D	462	Crystal Structure Of The F1-Atpase From The Thermoa		6e-09
2dpy_A	438	Crystal Structure Of The Flagellar Type Iii Atpase		9e-08
1nbm_E	480	The Structure Of Bovine F1-Atpase Covalently Inhibi		9e-08
2xnd_D	467	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		1e-07
1mab_B	479	Rat Liver F1-Atpase Length = 479		1e-07
2w6e_D	528	Low Resolution Structures Of Bovine Mitochondrial F		1e-07
1nbm_D	480	The Structure Of Bovine F1-Atpase Covalently Inhibi		1e-07
4asu_D	480	F1-Atpase In Which All Three Catalytic Sites Contai		1e-07
1cow_D	482	Bovine Mitochondrial F1-Atpase Complexed With Aurov		1e-07
3oaa_D	459	Structure Of The E.Coli F1-Atp Synthase Inhibited B		3e-07
4b2q_E	473	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		5e-07
3fks_D	484	Yeast F1 Atpase In The Absence Of Bound Nucleotides		6e-07
2hld_D	478	Crystal Structure Of Yeast Mitochondrial F1-Atpase		6e-07
4b2q_D	470	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		6e-07
3oeh_D	484	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		6e-07
1sky_E	473	Crystal Structure Of The Nucleotide Free Alpha3beta		7e-07
2xok_D	511	Refined Structure Of Yeast F1c10 Atpase Complex To		7e-07
2f43_A	510	Rat Liver F1-atpase Length = 510		8e-07
1mab_A	510	Rat Liver F1-Atpase Length = 510		8e-07
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		8e-07
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		9e-07
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		9e-07
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		9e-07
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		9e-07
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		1e-06
1fx0_B	498	Crystal Structure Of The Chloroplast F1-Atpase From		1e-05

>pdb|3VR6|D Chain D, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 465

Iteration: 1
 Score =  256 bits (654), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 117/191 (61%), Positives = 151/191 (79%), Gaps = 9/191 (4%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G  AID +N++ RGQK+P+FS +GLPH E+AAQI RQA ++         DS D+FA+
Sbjct: 136 QTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVL---------DSSDDFAV 186
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           VFAA+G+  E A FF +DF + G+++   +F+NLANDP IERI TPR+ALT AE+LAY+ 
Sbjct: 187 VFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEK 246
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
             HVLVI+TDM++YAEALRE+SAAR EVPGRRG+PGY+YTNLAT++ERAGR+ G  GS+T
Sbjct: 247 GMHVLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGLKGSVT 306
Query: 226 QIPILTMPNDD 236
           QIPILTMP DD
Sbjct: 307 QIPILTMPEDD 317

>pdb|3GQB|B Chain B, Crystal Structure Of The A3b3 Complex From V-atpase Length = 464

Iteration: 1
 Score =  254 bits (648), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 120/191 (62%), Positives = 152/191 (79%), Gaps = 2/191 (1%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G   IDVMN++ RGQK+PIFS +GLP NEIAAQI RQA +   P  S   + E+ FA+
Sbjct: 132 QTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATV--RPDLSGEGEKEEPFAV 189
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           VFAAMG+      +F Q+FE  G++    LFLN A+DPTIERI+TPR+ALT AE+LA++ 
Sbjct: 190 VFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEH 249
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
           + HVLVILTDM++Y+EALRE+ AAREE+PGRRG+PGYMYT+LATIYERAG VEG+ GS+T
Sbjct: 250 DYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVT 309
Query: 226 QIPILTMPNDD 236
           QIPIL+MP+DD
Sbjct: 310 QIPILSMPDDD 320

>pdb|3A5C|D Chain D, Inter-Subunit Interaction And Quaternary Rearrangement Defined By The Central Stalk Of Prokaryotic V1-Atpase Length = 478

Iteration: 1
 Score =  253 bits (646), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 120/191 (62%), Positives = 151/191 (79%), Gaps = 2/191 (1%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G   IDVMN++ RGQK+PIFS +GLP NEIAAQI RQA +   P  S   + E+ FA+
Sbjct: 132 QTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATV--RPDLSGEGEKEEPFAV 189
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           VFAAMG+      +F Q+FE  G++    LFLN A+DPTIERI+TPR+ALT AE+LA++ 
Sbjct: 190 VFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEH 249
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
           + HVLVILTDM++Y EALRE+ AAREE+PGRRG+PGYMYT+LATIYERAG VEG+ GS+T
Sbjct: 250 DYHVLVILTDMTNYCEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVT 309
Query: 226 QIPILTMPNDD 236
           QIPIL+MP+DD
Sbjct: 310 QIPILSMPDDD 320

>pdb|2RKW|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding Pocket Inside The Subunit B Mutant R416w Of The Energy Converter A1ao Atp Synthase Length = 469

Iteration: 1
 Score =  252 bits (644), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 122/199 (61%), Positives = 154/199 (77%), Gaps = 11/199 (5%)
Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLPHNEIA QI RQA    +PG      
Sbjct: 132 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQA---SVPG------ 180
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 181 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 240
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 241 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 300
Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 301 GAKGSVTQIPILSMPGDDI 319

>pdb|2C61|A Chain A, Crystal Structure Of The Non-Catalytic B Subunit Of A-Type Atpase From M. Mazei Go1 Length = 469

Iteration: 1
 Score =  252 bits (643), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 122/199 (61%), Positives = 154/199 (77%), Gaps = 11/199 (5%)
Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLPHNEIA QI RQA    +PG      
Sbjct: 132 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQA---SVPG------ 180
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 181 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 240
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 241 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 300
Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 301 GAKGSVTQIPILSMPGDDI 319

>pdb|3SSA|A Chain A, Crystal Structure Of Subunit B Mutant N157t Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score =  250 bits (638), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 121/199 (60%), Positives = 153/199 (76%), Gaps = 11/199 (5%)
Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLPH EIA QI RQA    +PG      
Sbjct: 123 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHTEIALQIARQA---SVPG------ 171
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 172 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 231
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 232 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 291
Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 292 GAKGSVTQIPILSMPGDDI 310

>pdb|3TIV|A Chain A, Crystal Structure Of Subunit B Mutant N157a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score =  249 bits (636), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 121/199 (60%), Positives = 153/199 (76%), Gaps = 11/199 (5%)
Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLPH EIA QI RQA    +PG      
Sbjct: 123 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHAEIALQIARQA---SVPG------ 171
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 172 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 231
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 232 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 291
Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 292 GAKGSVTQIPILSMPGDDI 310

>pdb|3TGW|A Chain A, Crystal Structure Of Subunit B Mutant H156a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score =  248 bits (633), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 121/199 (60%), Positives = 153/199 (76%), Gaps = 11/199 (5%)
Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLP NEIA QI RQA    +PG      
Sbjct: 123 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPANEIALQIARQA---SVPG------ 171
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 172 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 231
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 232 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 291
Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 292 GAKGSVTQIPILSMPGDDI 310

>pdb|3VR2|D Chain D, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 465

Iteration: 1
 Score =  229 bits (584), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 115/191 (60%), Positives = 145/191 (75%), Gaps = 9/191 (4%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G  AID +N++ RGQK+P+FS +GLPH E+AAQI RQA ++         DS D+FA+
Sbjct: 136 QTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVL---------DSSDDFAV 186
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           VFAA+G+  E A FF +DF + G+++    F NLANDP IERI TPR ALT AE+LAY+ 
Sbjct: 187 VFAAIGITFEEAEFFXEDFRQTGAIDRSVXFXNLANDPAIERIATPRXALTAAEYLAYEK 246
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSIT 225
             HVLVI TD ++YAEALRE+SAAR EVPGRRG+PGY+YTNLAT++ERAGR+ G  GS+T
Sbjct: 247 GXHVLVIXTDXTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGLKGSVT 306
Query: 226 QIPILTMPNDD 236
           QIPILT P DD
Sbjct: 307 QIPILTXPEDD 317

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score = 78.2 bits (191), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 52/192 (27%), Positives = 87/192 (45%), Gaps = 16/192 (8%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G  AID M  + RGQ+  I                RQ G   +   ++L+    N   V
Sbjct: 149 TGLIAIDAMIPVGRGQRELIIGD-------------RQTGKTAVATDTILNQQGQNVICV 195
Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G    +      +F+E G+ME   +    A+ P   + + P      AE+  Y+ E
Sbjct: 196 YVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYR-E 254
Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR--NGSI 224
           +H L+I  D+S  A+A R++S      PGR  +PG ++   + + ERA ++      GS+
Sbjct: 255 RHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSM 314
Query: 225 TQIPILTMPNDD 236
           T +PI+     D
Sbjct: 315 TALPIVETQAGD 326

>pdb|3ND9|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3ND9|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3M4Y|A Chain A, Structural Characterization Of The Subunit A Mutant P235a Of The A-Atp Synthase Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3M4Y|A Chain A, Structural Characterization Of The Subunit A Mutant P235a Of The A-Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3MFY|A Chain A, Structural Characterization Of The Subunit A Mutant F236a Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3MFY|A Chain A, Structural Characterization Of The Subunit A Mutant F236a Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3SE0|A Chain A, Structural Characterization Of The Subunit A Mutant F508w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3SE0|A Chain A, Structural Characterization Of The Subunit A Mutant F508w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3SDZ|A Chain A, Structural Characterization Of The Subunit A Mutant F427w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3SDZ|A Chain A, Structural Characterization Of The Subunit A Mutant F427w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3IKJ|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Mutant S238a Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3IKJ|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Mutant S238a Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|1VDZ|A Chain A, Crystal Structure Of A-Type Atpase Catalytic Subunit A From Pyrococcus Horikoshii Ot3 Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|1VDZ|A Chain A, Crystal Structure Of A-Type Atpase Catalytic Subunit A From Pyrococcus Horikoshii Ot3 Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3QJY|A Chain A, Crystal Structure Of P-Loop G234a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3QJY|A Chain A, Crystal Structure Of P-Loop G234a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3QIA|A Chain A, Crystal Structure Of P-Loop G237a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3QIA|A Chain A, Crystal Structure Of P-Loop G237a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3QG1|A Chain A, Crystal Structure Of P-Loop G239a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 50/154 (32%), Positives = 78/154 (50%), Gaps = 21/154 (13%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF------ 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF      
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQ 405
Query: 238 ------KVSAARE-EVPGRRGFPGYMYTNLATIY 264
                 KV  A + ++  RR FP   +    ++Y
Sbjct: 406 NTLRVVKVFWALDADLARRRHFPAINWLTSYSLY 439

>pdb|3QG1|A Chain A, Crystal Structure Of P-Loop G239a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3ND8|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3ND8|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3I4L|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A With Amp-Pnp Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + ++ D +S +AEALRE+S 
Sbjct: 288 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVALMADSTSRWAEALREISG 345
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P  DF
Sbjct: 346 RLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF 399

>pdb|3I4L|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A With Amp-Pnp Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 238 KVSAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPN 287
           ++S   EE+PG  G+P Y+ + LA  YERAGRV     + R GS++ I  ++ P 
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPG 396

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score = 68.6 bits (166), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 49/203 (24%), Positives = 87/203 (42%), Gaps = 27/203 (13%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G +A+D M  I RGQ+  I                RQ G   +   ++++  +     +
Sbjct: 148 TGYKAVDSMIPIGRGQRELIIGD-------------RQTGKTALAIDAIINQRDSGIKCI 194
Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           + A+G    T     +  EE+G++ N  + +  A++    + + P       E+   + E
Sbjct: 195 YVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGE 254
Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGR---------- 216
              L+I  D+S  A A R++S      PGR  FPG ++   + + ERA R          
Sbjct: 255 D-ALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFT 313
Query: 217 ---VEGRNGSITQIPILTMPNDD 236
              V+G+ GS+T +PI+     D
Sbjct: 314 KGEVKGKTGSLTALPIIETQAGD 336

>pdb|3VR6|A Chain A, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 600

Iteration: 1
 Score = 66.2 bits (160), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 62/114 (54%), Gaps = 8/114 (7%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           ME   L  N +N P   R  +    +T AE+  ++   + + I+ D +S +AEALRE+S 
Sbjct: 293 MERTVLIANTSNMPVAAREASIYTGITIAEY--FRDMGYDVAIMADSTSRWAEALREMSG 350
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
             EE+PG  G+P Y+ + LA  YER+GRV     + R GSIT I  ++    D 
Sbjct: 351 RLEEMPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDI 404

>pdb|2R9V|A Chain A, Crystal Structure Of Atp Synthase Subunit Alpha (Tm1612) From Thermotoga Maritima At 2.10 A Resolution Length = 515

Iteration: 1
 Score = 65.1 bits (157), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 49/193 (25%), Positives = 83/193 (43%), Gaps = 17/193 (8%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G +AID    I RGQ+  I                RQ G   +   ++++        
Sbjct: 160 QTGIKAIDSXIPIGRGQRELIIGD-------------RQTGKTAIAIDTIINQKGQGVYC 206
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           ++ A+G              + G+ E   + +  A+DP   + I P       E+ AY  
Sbjct: 207 IYVAIGQKKSAIARIIDKLRQYGAXEYTTVVVASASDPASLQYIAPYAGCAXGEYFAYSG 266
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR--NGS 223
            +  LV+  D+S +A A R++S      PGR  +PG ++   + + ERA R+  +   GS
Sbjct: 267 -RDALVVYDDLSKHAVAYRQLSLLXRRPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGS 325
Query: 224 ITQIPIL-TMPND 235
           +T +PI+ T  ND
Sbjct: 326 LTALPIVETQAND 338

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score = 65.1 bits (157), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 45/187 (24%), Positives = 82/187 (43%), Gaps = 16/187 (8%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G +AID M  I RGQ+  I                RQ G   +   ++++    +   
Sbjct: 147 QTGIKAIDSMIPIGRGQRELIIGD-------------RQTGKTTIAIDTIINQKGQDVIC 193
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           ++ A+G    T     +   ++ +++   +    A++P     + P       E+  Y+ 
Sbjct: 194 IYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKG 253
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV--EGRNGS 223
            KH LV+  D+S  A A RE+S      PGR  +PG ++   + + ERA ++  E   GS
Sbjct: 254 -KHALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGS 312
Query: 224 ITQIPIL 230
           +T +P +
Sbjct: 313 LTALPFI 319

>pdb|2OBL|A Chain A, Structural And Biochemical Analysis Of A Prototypical Atpase From The Type Iii Secretion System Of Pathogenic Bacteria Length = 347

Iteration: 1
 Score = 64.7 bits (156), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 55/189 (29%), Positives = 90/189 (47%), Gaps = 19/189 (10%)
Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G RAID + +   GQ+I IF+ +G+  + +   IC  A             S D   IV 
Sbjct: 58  GVRAIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGA-------------SAD--IIVL 102
Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
           A +G        F     ++ ++    L +  ++ P +ER+     A T AE+   Q  K
Sbjct: 103 ALIGERGREVNEFLALLPQS-TLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQG-K 160
Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQI 227
           +VL+++  ++ YA A R+V  A  E   R GFP  ++++L  + ERAG      GSIT I
Sbjct: 161 NVLLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAG--PAPKGSITAI 218
Query: 228 PILTMPNDD 236
             + + +D+
Sbjct: 219 YTVLLESDN 227

>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 502

Iteration: 1
 Score = 63.9 bits (154), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 83/194 (42%), Gaps = 16/194 (8%)
Query: 46  SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAI 105
            +G +AID +  I RGQ+  I                RQ G   +   ++++  + N   
Sbjct: 147 QTGIKAIDALVPIGRGQRELIIGD-------------RQTGKTSVAIDTIINQKDQNMIC 193
Query: 106 VFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQC 165
           ++ A+G    T     +   ++G+ +   +    A+ P     + P   +   E+     
Sbjct: 194 IYVAIGQKESTVATVVETLAKHGAPDYTIVVTASASQPAPLLFLAPYAGVAMGEYFMIMG 253
Query: 166 EKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN--GS 223
            KHVLV++ D+S  A A R++S      PGR  +PG ++   + + ERA ++      GS
Sbjct: 254 -KHVLVVIDDLSKQAAAYRQLSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSDAKGGGS 312
Query: 224 ITQIPILTMPNDDF 237
           +T +P +     D 
Sbjct: 313 LTALPFVETQAGDI 326

>pdb|3GQB|A Chain A, Crystal Structure Of The A3b3 Complex From V-atpase Length = 578

Iteration: 1
 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/112 (33%), Positives = 61/112 (54%), Gaps = 6/112 (5%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           M    L  N +N P   R  +  + +T AE+  ++ +   + ++ D +S +AEALRE+S+
Sbjct: 282 MHRTVLIANTSNMPVAAREASIYVGVTIAEY--FRDQGFSVALMADSTSRWAEALREISS 339
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV---EGRNGSITQIPILTMPNDDF 237
             EE+P   G+P Y+   LA  YERAG+V    G  G++T +  ++ P  D 
Sbjct: 340 RLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDM 391

>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 600

Iteration: 1
 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/113 (36%), Positives = 58/113 (51%), Gaps = 8/113 (7%)
Query: 131 ENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSAA 189
           E   L  N +N P   R  +    +T AE+  ++   + + I  D +S +AEALRE S  
Sbjct: 294 ERTVLIANTSNXPVAAREASIYTGITIAEY--FRDXGYDVAIXADSTSRWAEALREXSGR 351
Query: 190 REEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILTMPNDDF 237
            EE PG  G+P Y+ + LA  YER+GRV     + R GSIT I  ++    D 
Sbjct: 352 LEEXPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDI 404

>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 600

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/50 (44%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 240 SAAREEVPGRRGFPGYMYTNLATIYERAGRV-----EGRNGSITQIPILT 284
           S   EE PG  G+P Y+ + LA  YER+GRV     + R GSIT I  ++
Sbjct: 349 SGRLEEXPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVS 398

>pdb|3A5C|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement Defined By The Central Stalk Of Prokaryotic V1-Atpase Length = 578

Iteration: 1
 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/112 (33%), Positives = 61/112 (54%), Gaps = 6/112 (5%)
Query: 130 MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS-YAEALREVSA 188
           M    L  N +N P   R  +  + +T AE+  ++ +   + ++ D +S +AEALRE+S+
Sbjct: 282 MHRTVLIANTSNMPVAAREASIYVGVTIAEY--FRDQGFSVALMADSTSRWAEALREISS 339
Query: 189 AREEVPGRRGFPGYMYTNLATIYERAGRV---EGRNGSITQIPILTMPNDDF 237
             EE+P   G+P Y+   LA  YERAG+V    G  G++T +  ++ P  D 
Sbjct: 340 RLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDM 391

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score = 59.3 bits (142), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 150 TGLKAVDALVPIGRGQRELIIG-------------DRQTGKTAVALDTILNQKRWNNGSD 196
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 197 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 256
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 257 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 316 EKEGSGSLTALPVIETQGGD 335

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 125 TGLKAVDALVPIGRGQRELIIGD-------------RQTGKTAVALDTILNQKRWNNGSD 171
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 172 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 231
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 232 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 290
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 291 EKEGSGSLTALPVIETQGGD 310

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 150 TGLKAVDALVPIGRGQRELIIGD-------------RQTGKTAVALDTILNQKRWNNGSD 196
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 197 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 256
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 257 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 316 EKEGSGSLTALPVIETQGGD 335

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 150 TGLKAVDALVPIGRGQRELIIG-------------DRQTGKTAVALDTILNQKRWNNGSD 196
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 197 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 256
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 257 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 316 EKEGSGSLTALPVIETQGGD 335

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 126 TGLKAVDALVPIGRGQRELIIGD-------------RQTGKTAVALDTILNQKRWNNGSD 172
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 173 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 232
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 233 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 291
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 292 EKEGSGSLTALPVIETQGGD 311

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/200 (23%), Positives = 86/200 (43%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++L+        D
Sbjct: 185 TGLKAVDALVPIGRGQRELIIG-------------DRQTGKTAVALDTILNQKRWNNGSD 231
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
                  V+ A+G    T     Q  E++ +M+   +    A++    + + P  A +  
Sbjct: 232 ESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASIG 291
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L++  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 292 EWF-RDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 350
Query: 219 GR--NGSITQIPILTMPNDD 236
            +  +GS+T +P++     D
Sbjct: 351 EKEGSGSLTALPVIETQGGD 370

>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 462

Iteration: 1
 Score = 58.2 bits (139), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 43/191 (22%), Positives = 80/191 (41%), Gaps = 14/191 (7%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + ID++   A+G KI +F  AG+    +  ++                  E     V
Sbjct: 130 TGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNVA------------QEHGGLSV 177
Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           FA +G           + +++G +    +     N+P   R+      LT AE+   +  
Sbjct: 178 FAGVGERTREGNDLYHEMKDSGVISKTSMVFGQMNEPPGARLRVALTGLTMAEYFRDREG 237
Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQ 226
           + VL+ + ++  + +A  EVSA    +P   G+   + T +  + ER      + GSIT 
Sbjct: 238 QDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERI--TSTKKGSITS 295
Query: 227 IPILTMPNDDF 237
           I  + +P DD+
Sbjct: 296 IQAIYVPADDY 306

>pdb|2DPY|A Chain A, Crystal Structure Of The Flagellar Type Iii Atpase Flii Length = 438

Iteration: 1
 Score = 54.3 bits (129), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 50/212 (23%), Positives = 89/212 (41%), Gaps = 43/212 (20%)
Query: 38  TPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ-------AGLVKM 90
           TP + + D+ G RAI+ + ++ RGQ++ +F+ +G+  + +   + R         GL+  
Sbjct: 135 TPIEHVLDT-GVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYTRADVIVVGLIGE 193
Query: 91  PGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 150
            G+ V D                     F +     +G   +V +             ++
Sbjct: 194 RGREVKD---------------------FIENILGPDGRARSVVI--------AAPADVS 224
Query: 151 PRLALTTAEFLAYQCE------KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMY 204
           P L +  A +     E      +HVL+I+  ++ YA A RE++ A  E P  +G+P  ++
Sbjct: 225 PLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVF 284
Query: 205 TNLATIYERAGRVEGRNGSITQIPILTMPNDD 236
             L  + ERAG      GSIT    +    DD
Sbjct: 285 AKLPALVERAGNGIHGGGSITAFYTVLTEGDD 316

>pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Covalently Inhibited With 4-Chloro-7-Nitrobenzofurazan Length = 480

Iteration: 1
 Score = 53.9 bits (128), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 139 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 186
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 187 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 246
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 247 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 304
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 305 KGSITSVQAIXVPADDL 321

>pdb|2XND|D Chain D, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 467

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 127 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 174
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 175 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 234
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 235 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 292
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 293 KGSITSVQAIYVPADDL 309

>pdb|1MAB|B Chain B, Rat Liver F1-Atpase Length = 479

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 135 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 182
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 183 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 242
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 243 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 300
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 301 KGSITSVQAIYVPADDL 317

>pdb|2W6E|D Chain D, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 528

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 185 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 232
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 233 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 292
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 293 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 350
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 351 KGSITSVQAIYVPADDL 367

>pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Covalently Inhibited With 4-Chloro-7-Nitrobenzofurazan Length = 480

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 139 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 186
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 187 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 246
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 247 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 304
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 305 KGSITSVQAIYVPADDL 321

>pdb|4ASU|D Chain D, F1-Atpase In Which All Three Catalytic Sites Contain Bound Nucleotide, With Magnesium Ion Released In The Empty Site Length = 480

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 137 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 184
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 185 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 244
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 245 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 302
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 303 KGSITSVQAIYVPADDL 319

>pdb|1COW|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 482

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/197 (22%), Positives = 82/197 (41%), Gaps = 20/197 (10%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   A+G KI +F  AG+    +  ++                 +   ++ V
Sbjct: 139 TGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-----------KAHGGYS-V 186
Query: 107 FAAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEF 160
           FA +G           +  E+G      +   V L     N+P   R       LT AE+
Sbjct: 187 FAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEY 246
Query: 161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGR 220
              Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      +
Sbjct: 247 FRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--K 304
Query: 221 NGSITQIPILTMPNDDF 237
            GSIT +  + +P DD 
Sbjct: 305 KGSITSVQAIYVPADDL 321

>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 459

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 45/191 (23%), Positives = 79/191 (41%), Gaps = 15/191 (7%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + ID+M   A+G K+ +F  AG+       ++ R   +            E +   V
Sbjct: 128 TGIKVIDLMCPFAKGGKVGLFGGAGVGKTVNMMELIRNIAI------------EHSGYSV 175
Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCE 166
           FA +G        F  +  ++  ++ V L     N+P   R+      LT AE    +  
Sbjct: 176 FAGVGERTREGNDFYHEMTDSNVIDKVSLVYGQMNEPPGNRLRVALTGLTMAEKFRDEG- 234
Query: 167 KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQ 226
           + VL+ + ++  Y  A  EVSA    +P   G+   +   +  + ER      + GSIT 
Sbjct: 235 RDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQERI--TSTKTGSITS 292
Query: 227 IPILTMPNDDF 237
           +  + +P DD 
Sbjct: 293 VQAVYVPADDL 303

>pdb|4B2Q|E Chain E, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 473

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 131 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 178
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 179 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 238
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 239 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGLLQERITTT--KK 296
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 297 GSVTSVQAVYVPADDL 312

>pdb|3FKS|D Chain D, Yeast F1 Atpase In The Absence Of Bound Nucleotides Length = 484

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 142 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 189
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 190 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 249
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 250 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGLLQERITTT--KK 307
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 308 GSVTSVQAVYVPADDL 323

>pdb|2HLD|D Chain D, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 478

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 136 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 183
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 184 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 243
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 244 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGLLQERITTT--KK 301
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 302 GSVTSVQAVYVPADDL 317

>pdb|4B2Q|D Chain D, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 470

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 131 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 178
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 179 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 238
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 239 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGLLQERITTT--KK 296
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 297 GSVTSVQAVYVPADDL 312

>pdb|3OEH|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Beta-V279f Length = 484

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 142 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 189
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 190 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 249
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 250 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAFGYQPTLATDMGLLQERITTT--KK 307
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 308 GSVTSVQAVYVPADDL 323

>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 473

Iteration: 1
 Score = 51.2 bits (121), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 42/195 (21%), Positives = 80/195 (41%), Gaps = 22/195 (11%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPH----NEIAAQICRQAGLVKMPGKSVLDDSEDN 102
           +G + +D++    +G KI +F  AG+       E+   I ++ G +              
Sbjct: 137 TGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGIS------------- 183
Query: 103 FAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLA 162
              VFA +G           + +++G +    +     N+P   R+      LT AE+  
Sbjct: 184 ---VFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFR 240
Query: 163 YQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNG 222
            +  +  L+ + ++  + +A  EVSA    +P   G+   + T +  + ER        G
Sbjct: 241 DEQGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQERI--TSTAKG 298
Query: 223 SITQIPILTMPNDDF 237
           SIT I  + +P DD+
Sbjct: 299 SITSIQAIYVPADDY 313

>pdb|2XOK|D Chain D, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 511

Iteration: 1
 Score = 51.2 bits (121), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 43/196 (21%), Positives = 81/196 (41%), Gaps = 19/196 (9%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIV 106
           +G + +D++   ARG KI +F  AG+       ++              +  +   F+ V
Sbjct: 169 TGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQELINN-----------IAKAHGGFS-V 216
Query: 107 FAAMGVNMETARFFKQDFEENGSM-----ENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           F  +G          ++ +E G +       V L     N+P   R       LT AE+ 
Sbjct: 217 FTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGARARVALTGLTIAEYF 276
Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             +  + VL+ + ++  + +A  EVSA    +P   G+   + T++  + ER      + 
Sbjct: 277 RDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGLLQERI--TTTKK 334
Query: 222 GSITQIPILTMPNDDF 237
           GS+T +  + +P DD 
Sbjct: 335 GSVTSVQAVYVPADDL 350

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 148 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 194
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 195 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 254
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 255 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 314 DSFGGGSLTALPVIETQAGD 333

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 148 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 194
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 195 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 254
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 255 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 314 DSFGGGSLTALPVIETQAGD 333

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 130 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 176
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 177 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 236
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 237 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 295
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 296 DAFGGGSLTALPVIETQAGD 315

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 125 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 171
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 172 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 231
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 232 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 290
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 291 DAFGGGSLTALPVIETQAGD 310

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 148 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 194
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 195 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 254
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 255 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 314 DAFGGGSLTALPVIETQAGD 333

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 148 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 194
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 195 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 254
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 255 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 314 DAFGGGSLTALPVIETQAGD 333

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 148 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 194
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 195 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 254
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 255 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 314 DAFGGGSLTALPVIETQAGD 333

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 43/200 (21%), Positives = 82/200 (41%), Gaps = 24/200 (12%)
Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD--------D 98
           +G +A+D +  I RGQ+  I                RQ G   +   ++++        D
Sbjct: 191 TGIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTD 237
Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
            +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  
Sbjct: 238 EKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG 297
Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ERA ++ 
Sbjct: 298 EYF-RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 356
Query: 219 GR--NGSITQIPILTMPNDD 236
                GS+T +P++     D
Sbjct: 357 DAFGGGSLTALPVIETQAGD 376

>pdb|1FX0|B Chain B, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 498

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/113 (29%), Positives = 54/113 (47%), Gaps = 2/113 (1%)
Query: 125 EENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR 184
           E+N +   V L     N+P   R+     ALT AE+     E+ VL+ + ++  + +A  
Sbjct: 224 EQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGS 283
Query: 185 EVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDF 237
           EVSA    +P   G+   + T + ++ ER      + GSIT I  + +P DD 
Sbjct: 284 EVSALLGRMPSAVGYQPTLSTEMGSLQERI--TSTKEGSITSIQAVYVPADDL 334

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	293
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	1e-106
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	1e-106
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	1e-21
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	7e-20
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	1e-17
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	7e-17
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	8e-11
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	1e-10
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	1e-10
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	2e-09
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D* Length = 464

 Score =  316 bits (812), Expect = e-106
 Identities = 122/200 (61%), Positives = 154/200 (77%), Gaps = 4/200 (2%)

Query: 38  TPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLD 97
            P   I   +G   IDVMN++ RGQK+PIFS +GLP NEIAAQI RQA +   P  S   
Sbjct: 126 KPEQFI--QTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATVR--PDLSGEG 181

Query: 98  DSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTT 157
           + E+ FA+VFAAMG+      +F Q+FE  G++    LFLN A+DPTIERI+TPR+ALT 
Sbjct: 182 EKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTV 241

Query: 158 AEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV 217
           AE+LA++ + HVLVILTDM++Y+EALRE+ AAREE+PGRRG+PGYMYT+LATIYERAG V
Sbjct: 242 AEYLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVV 301

Query: 218 EGRNGSITQIPILTMPNDDF 237
           EG+ GS+TQIPIL+MP+DD 
Sbjct: 302 EGKKGSVTQIPILSMPDDDR 321

>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* Length = 469

 Score =  315 bits (809), Expect = e-106
 Identities = 120/199 (60%), Positives = 152/199 (76%), Gaps = 11/199 (5%)

Query: 39  PRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDD 98
           P+D I   +G   ID  N++ RGQK+PIFSA+GLPHNEIA QI RQA +           
Sbjct: 132 PKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASV---------PG 180

Query: 99  SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTA 158
           SE  FA+VFAAMG+  E A++F  DFE+ G++E   +FLNLA+DP +ERI+TPR+ALT A
Sbjct: 181 SESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAA 240

Query: 159 EFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE 218
           E+LAY+   HVLVILTD+++YAEALR++ AAR EVPGRRG+PGYMYT+LAT+YERAG V+
Sbjct: 241 EYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK 300

Query: 219 GRNGSITQIPILTMPNDDF 237
           G  GS+TQIPIL+MP DD 
Sbjct: 301 GAKGSVTQIPILSMPGDDI 319

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C Length = 578

 Score = 94.0 bits (234), Expect = 1e-21
 Identities = 55/205 (26%), Positives = 84/205 (40%), Gaps = 34/205 (16%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFA--- 104
           G R +DV+  +A G    I    G                    GKSV   S   ++   
Sbjct: 208 GMRILDVLFPVAMGGTAAIPGPFGS-------------------GKSVTQQSLAKWSNAD 248

Query: 105 -IVFAAMG-----VNMETARFFKQDFEENGS--MENVCLFLNLANDPTIERIITPRLALT 156
            +V+   G     +      F +    + G   M    L  N +N P   R  +  + +T
Sbjct: 249 VVVYVGSGERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVT 308

Query: 157 TAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGR 216
            AE+   Q    V ++    S +AEALRE+S+  EE+P   G+P Y+   LA  YERAG+
Sbjct: 309 IAEYFRDQ-GFSVALMADSTSRWAEALREISSRLEEMPAEEGYPPYLAARLAAFYERAGK 367

Query: 217 VE---GRNGSITQIPILTMPNDDFK 238
           V    G  G++T +  ++ P  D  
Sbjct: 368 VITLGGEEGAVTIVGAVSPPGGDMS 392

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A Length = 588

 Score = 88.6 bits (220), Expect = 7e-20
 Identities = 58/209 (27%), Positives = 87/209 (41%), Gaps = 38/209 (18%)

Query: 47  SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFA-- 104
           +G+R ID     A+G    I   AG                    GK+V       ++  
Sbjct: 213 TGQRVIDTFFPQAKGGTAAIPGPAGS-------------------GKTVTQHQLAKWSDA 253

Query: 105 --IVFAAMG-----VNMETARFFKQDFEENGS--MENVCLFLNLANDPTIERIITPRLAL 155
             +++   G     +      F K    + G   ME   L  N +N P   R  +    +
Sbjct: 254 QVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGI 313

Query: 156 TTAEFLAYQCE-KHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERA 214
           T AE+  ++     V ++    S +AEALRE+S   EE+PG  G+P Y+ + LA  YERA
Sbjct: 314 TIAEY--FRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERA 371

Query: 215 GRVE-----GRNGSITQIPILTMPNDDFK 238
           GRV       R GS++ I  ++ P  DF 
Sbjct: 372 GRVVTLGSDYRVGSVSVIGAVSPPGGDFS 400

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score = 81.2 bits (201), Expect = 1e-17
 Identities = 52/200 (26%), Positives = 83/200 (41%), Gaps = 38/200 (19%)

Query: 40  RDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL- 96
           R  I     +G RAI+ + ++ RGQ++ +F+ +G+                   GKSVL 
Sbjct: 134 RTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGV-------------------GKSVLL 174

Query: 97  -----DDSEDNFAIVFAAMGVNMETAR----FFKQDFEENGSMENVCLFLNLANDPTIER 147
                    D   IV   +G   E  R    F +     +G      +    A+   + R
Sbjct: 175 GMMARYTRAD--VIVVGLIG---ERGREVKDFIENILGPDG-RARSVVIAAPADVSPLLR 228

Query: 148 IITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNL 207
           +     A   AE    +  +HVL+I+  ++ YA A RE++ A  E P  +G+P  ++  L
Sbjct: 229 MQGAAYATRIAEDFRDR-GQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKL 287

Query: 208 ATIYERAGRVEGRNGSITQI 227
             + ERAG      GSIT  
Sbjct: 288 PALVERAGNGIHGGGSITAF 307

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score = 78.5 bits (194), Expect = 7e-17
 Identities = 57/196 (29%), Positives = 86/196 (43%), Gaps = 33/196 (16%)

Query: 40  RDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVL- 96
           R +I      G RAID + +   GQ+I IF+ +G+                   GKS L 
Sbjct: 48  RQVIDQPFILGVRAIDGLLTCGIGQRIGIFAGSGV-------------------GKSTLL 88

Query: 97  -----DDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITP 151
                  S D   IV A +G        F     ++  +    L +  ++ P +ER+   
Sbjct: 89  GMICNGASAD--IIVLALIGERGREVNEFLALLPQST-LSKCVLVVTTSDRPALERMKAA 145

Query: 152 RLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIY 211
             A T AE+   Q  K+VL+++  ++ YA A R+V  A  E   R GFP  ++++L  + 
Sbjct: 146 FTATTIAEYFRDQ-GKNVLLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLL 204

Query: 212 ERAGRVEGRNGSITQI 227
           ERAG      GSIT I
Sbjct: 205 ERAGP--APKGSITAI 218

>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* Length = 507

 Score = 61.2 bits (149), Expect = 8e-11
 Identities = 58/200 (29%), Positives = 91/200 (45%), Gaps = 26/200 (13%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G  AID M  + RGQ+  I                RQ G   +   ++L+    N   V+
Sbjct: 150 GLIAIDAMIPVGRGQRELIIGD-------------RQTGKTAVATDTILNQQGQNVICVY 196

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
            A+G    +      +F+E G+ME   +    A+ P   + + P      AE+  Y+ E+
Sbjct: 197 VAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYR-ER 255

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRVEGRN--G 222
           H L+I  D+S  A+A R++S      PGR  +PG   Y+++ L    ERA ++      G
Sbjct: 256 HTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERAAKLSSLLGEG 312

Query: 223 SITQIPIL-TMPNDDFKVSA 241
           S+T +PI+ T   D   VSA
Sbjct: 313 SMTALPIVETQAGD---VSA 329

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score = 60.8 bits (148), Expect = 1e-10
 Identities = 55/200 (27%), Positives = 88/200 (44%), Gaps = 26/200 (13%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G +AID M  I RGQ+  I                RQ G   +   ++++        ++
Sbjct: 162 GIKAIDSMIPIGRGQRELIIGD-------------RQTGKTAIAIDTIINQKGQGVYCIY 208

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
            A+G              + G+ME   + +  A+DP   + I P       E+ AY   +
Sbjct: 209 VAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYS-GR 267

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRV--EGRNG 222
             LV+  D+S +A A R++S      PGR  +PG   Y+++ L    ERA R+  +   G
Sbjct: 268 DALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRL---LERAVRLNDKLGGG 324

Query: 223 SITQIPIL-TMPNDDFKVSA 241
           S+T +PI+ T  ND   +SA
Sbjct: 325 SLTALPIVETQAND---ISA 341

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score = 60.8 bits (148), Expect = 1e-10
 Identities = 51/200 (25%), Positives = 86/200 (43%), Gaps = 26/200 (13%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G +AID M  I RGQ+  I                RQ G   +   ++++    +   ++
Sbjct: 149 GIKAIDSMIPIGRGQRELIIGD-------------RQTGKTTIAIDTIINQKGQDVICIY 195

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
            A+G    T     +   ++ +++   +    A++P     + P       E+  Y+  K
Sbjct: 196 VAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYK-GK 254

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRVEGRN--G 222
           H LV+  D+S  A A RE+S      PGR  +PG   Y+++ L    ERA ++      G
Sbjct: 255 HALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRL---LERAAKLSDEKGGG 311

Query: 223 SITQIPIL-TMPNDDFKVSA 241
           S+T +P + T   D   VSA
Sbjct: 312 SLTALPFIETQAGD---VSA 328

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ... Length = 510

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 49/208 (23%), Positives = 84/208 (40%), Gaps = 34/208 (16%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG--------LVKMPGKSVLDDS 99
           G +A+D +  I RGQ+  I                RQ G        ++     +   D 
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGD-------------RQTGKTSIAIDTIINQKRFNDGTDE 195

Query: 100 EDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE 159
           +     ++ A+G    T     +   +  +M+   +    A+D    + + P    +  E
Sbjct: 196 KKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGE 255

Query: 160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGR 216
           +      KH L+I  D+S  A A R++S      PGR  +PG   Y+++ L    ERA +
Sbjct: 256 YFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERAAK 311

Query: 217 V--EGRNGSITQIPIL-TMPNDDFKVSA 241
           +      GS+T +P++ T   D   VSA
Sbjct: 312 MNDAFGGGSLTALPVIETQAGD---VSA 336

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score = 53.8 bits (130), Expect = 2e-08
 Identities = 54/211 (25%), Positives = 91/211 (43%), Gaps = 37/211 (17%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G +A+D M  I RGQ+  I                RQ G   +   ++++  +     ++
Sbjct: 149 GYKAVDSMIPIGRGQRELIIGD-------------RQTGKTALAIDAIINQRDSGIKCIY 195

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
            A+G    T     +  EE+G++ N  + +  A++    + + P       E+   +  +
Sbjct: 196 VAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDR-GE 254

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPG---YMYTNLATIYERAGRV------- 217
             L+I  D+S  A A R++S      PGR  FPG   Y+++ L    ERA RV       
Sbjct: 255 DALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRL---LERAARVNAEYVEA 311

Query: 218 ------EGRNGSITQIPIL-TMPNDDFKVSA 241
                 +G+ GS+T +PI+ T   D   VSA
Sbjct: 312 FTKGEVKGKTGSLTALPIIETQAGD---VSA 339

>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 = 44.8 bits (105), Expect = 2e-05
 Identities = 31/203 (15%), Positives = 67/203 (33%), Gaps = 51/203 (25%)

Query: 7   EEALTPDDLLYLEFLT---KFEKNFVSQEGERSFTPRD-LIGDSSGKRAIDVMNSIARGQ 62
           EE L  +   Y +FL    K E+   S         RD L  D+   +     N ++R Q
Sbjct: 84  EEVLRIN---Y-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN---QVFAKYN-VSRLQ 135

Query: 63  KIPIFSAAGLPHNEI--AAQICRQAGLVK---MPG--KSVL------DDSED---NFAIV 106
                     P+ ++  A    R A  V    + G  K+ +              +F I 
Sbjct: 136 ----------PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185

Query: 107 FAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE-----FL 161
           +  +          +        ++ +   ++       +     +L + + +      L
Sbjct: 186 WLNLKNCNSPETVLEM-------LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 162 AYQCEKHVLVILTDMSSYAEALR 184
             +  ++ L++L ++ + A+A  
Sbjct: 239 KSKPYENCLLVLLNVQN-AKAWN 260

>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 = 44.5 bits (104), Expect = 3e-05
 Identities = 28/263 (10%), Positives = 73/263 (27%), Gaps = 66/263 (25%)

Query: 8   EALTPDDL--LYLEFLTKFEKNFVSQEGERSFTPRDLI----GDSSGKRAIDVMNS---- 57
             L P +   ++   L+ F  +        +  P  L+     D      + V+N     
Sbjct: 364 NVLEPAEYRKMFDR-LSVFPPS--------AHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414

Query: 58  --IARGQKIPIFSAAGL-----PHNEIAAQICRQAGLV-------KMPGKSVLDDSEDNF 103
             + +  K    S   +        E    + R   +V             ++    D +
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRS--IVDHYNIPKTFDSDDLIPPYLDQY 472

Query: 104 AIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAY 163
              ++ +G +++         E         +FL+        R +  ++   +    A+
Sbjct: 473 --FYSHIGHHLKNIE---HP-ERMTLFRM--VFLDF-------RFLEQKIRHDS---TAW 514

Query: 164 QCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGR--VEGRN 221
                +L  L  +  Y   + +     E           +   +     +     +  + 
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYER----------LVNAILDFLPKIEENLICSKY 564

Query: 222 GSITQIPILTMPNDDFKVSAARE 244
             + +I  L   ++     A ++
Sbjct: 565 TDLLRI-ALMAEDEAIFEEAHKQ 586

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	293
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	100.0
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	100.0
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	100.0
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	100.0
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	100.0
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	100.0
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	100.0
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	100.0
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	100.0
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	100.0
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	100.0
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	100.0
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	100.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	100.0
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	100.0
3ice_A	422	Transcription termination factor RHO; transcriptio	100.0
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	100.0
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	100.0
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	98.04
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.95
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.95
3io5_A	333	Recombination and repair protein; storage dimer, i	97.89
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.89
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.88
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.86
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.85
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.84
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.81
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.78
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.76
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.7
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.61
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.58
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.56
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.54
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.51
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.45
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.44
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.42
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.4
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.36
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.26
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.19
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	97.18
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.15
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.14
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.08
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.05
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	97.03
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.97
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.94
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	96.9
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.88
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.88
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.87
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.81
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.8
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.73
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	96.73
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.73
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	96.72
2qgz_A	308	Helicase loader, putative primosome component; str	96.72
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.71
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.7
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.54
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.54
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.46
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.45
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.45
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.43
3bos_A	242	Putative DNA replication factor; P-loop containing	96.42
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.42
3pvs_A	447	Replication-associated recombination protein A; ma	96.41
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.36
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.31
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.22
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.18
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.18
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.17
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.15
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.14
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.09
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.06
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.05
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	96.02
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.97
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.97
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.96
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.95
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.95
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.94
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.94
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.93
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.93
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.93
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.92
1g6h_A	257	High-affinity branched-chain amino acid transport	95.91
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.91
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.9
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.9
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.89
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.89
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.87
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.86
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.85
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.85
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.84
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	95.84
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.83
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.82
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.82
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.8
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.8
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.79
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.77
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.77
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.76
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.71
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.71
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.71
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.69
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.69
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.68
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.67
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.65
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.65
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.65
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.65
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.65
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.64
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.63
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.62
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.6
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.57
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.56
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.55
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.54
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	95.54
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.51
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.5
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.48
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.45
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.44
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.43
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.39
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.39
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.37
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.35
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.35
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.33
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.31
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.31
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.31
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.28
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.27
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.26
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.26
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.23
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.23
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.21
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.2
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.2
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.19
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.19
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.17
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.16
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.15
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.15
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.13
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.03
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.03
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.01
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.96
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.95
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.94
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.94
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.89
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.89
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.88
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.87
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	94.82
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.81
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.79
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.79
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.78
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.78
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.76
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.75
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	94.75
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.74
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.74
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	94.73
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.71
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	94.7
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.7
2chg_A	226	Replication factor C small subunit; DNA-binding pr	94.66
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.66
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.66
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.65
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.63
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.62
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.57
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.56
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.52
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.52
2fna_A	357	Conserved hypothetical protein; structural genomic	94.48
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.47
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.46
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.45
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	94.44
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.42
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.41
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.41
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.36
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.35
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.33
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.32
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.31
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.31
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.3
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	94.29
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	94.24
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.24
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.22
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.17
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.16
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.15
2og2_A	359	Putative signal recognition particle receptor; nuc	94.13
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.13
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.12
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.1
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.09
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.07
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.07
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.06
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.06
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.04
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.03
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	94.02
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.98
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.97
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	93.96
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.95
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.95
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	93.92
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	93.91
1via_A	175	Shikimate kinase; structural genomics, transferase	93.9
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.9
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.9
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.88
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.88
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	93.83
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.81
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.79
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.78
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.76
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.76
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.75
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	93.73
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	93.71
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.7
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.61
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	93.58
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.57
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.57
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.56
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	93.55
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	93.53
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.52
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.49
2r44_A	331	Uncharacterized protein; putative ATPase, structur	93.48
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	93.47
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.45
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	93.42
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	93.39
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.37
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.3
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.28
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.26
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.25
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.23
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	93.22
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.19
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.18
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	93.18
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	93.16
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.14
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	93.14
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.14
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.12
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.1
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.09
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	93.08
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.08
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	93.07
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.07
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.99
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	92.99
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	92.98
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.96
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	92.96
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	92.95
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.95
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	92.93
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	92.92
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.91
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	92.91
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.88
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.85
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	92.85
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.71
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.7
2chq_A	319	Replication factor C small subunit; DNA-binding pr	92.69
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.68
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.68
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.67
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	92.66
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	92.65
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	92.63
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.62
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	92.61
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	92.6
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.6
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.6
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.58
3co5_A	143	Putative two-component system transcriptional RES	92.57
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.52
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	92.51
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.49
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	92.49
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.49
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	92.48
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	92.47
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.47
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	92.46
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.45
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	92.44
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.43
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.42
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.4
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.39
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.38
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	92.37
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.35
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.31
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.3
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	92.25
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.22
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.2
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.2
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.19
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.18
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.16
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.15
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	92.12
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	92.08
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.08
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.05
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.02
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.01
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.01
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	92.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.99
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.98
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.96
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	91.94
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	91.9
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.9
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.88
1nrj_B	218	SR-beta, signal recognition particle receptor beta	91.87
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.85
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.8
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.79
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	91.78
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	91.73
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.7
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.67
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	91.65
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.64
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	91.64
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.62
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.62
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	91.61
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.58
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.57
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.55
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.53
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.47
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	91.45
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.44
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	91.41
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.39
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	91.37
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.36
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.33
1p9r_A	418	General secretion pathway protein E; bacterial typ	91.32
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.32
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.32
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.3
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.29
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.29
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	91.27
2hf9_A	226	Probable hydrogenase nickel incorporation protein	91.21
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	91.2
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.16
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.16
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	91.03
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.99
2xxa_A	433	Signal recognition particle protein; protein trans	90.97
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	90.96
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	90.92
3ice_A	422	Transcription termination factor RHO; transcriptio	90.9
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	90.88
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	90.84
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	90.82
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	90.81
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.8
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	90.78
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	90.77
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	90.76
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	90.74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	90.73
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	90.72
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	90.71
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.71
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	90.69
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	90.65
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.59
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	90.57
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	90.53
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	90.52
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.51
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	90.47
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.47
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	90.43
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	90.39
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	90.33
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	90.26
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.26
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	90.26
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	90.23
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	90.2
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	90.19
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	90.17
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.16
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	90.07
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	90.07
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.05
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	90.04
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	90.04
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	90.02
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	89.99
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	89.98
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	89.96
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	89.94
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	89.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	89.91
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	89.85
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.82
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	89.77
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	89.69
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	89.62
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	89.62
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	89.55
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	89.5
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	89.48
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	89.41
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.38
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	89.36
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	89.32
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	89.3
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	89.27
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	89.27
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	89.12
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	89.12
3l0o_A	427	Transcription termination factor RHO; helicase, RH	89.11
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	89.09
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	89.02
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	88.97
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	88.94
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	88.88
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	88.8
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	88.65
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	88.5
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	88.44
3llu_A	196	RAS-related GTP-binding protein C; structural geno	88.44
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	88.44
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	88.44
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	88.36
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	88.34
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	88.24
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	88.22

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=100.00  E-value=8e-70  Score=533.74  Aligned_cols=251  Identities=49%  Similarity=0.774  Sum_probs=230.9

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+...++   ...++.+.||..|.++++++  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        97 ~d~lG~PiD~~~~i~~~~~---~~i~~~~p~p~~R~~~~e~l--~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L~~~I  171 (465)
T 3vr4_D           97 FDGLGRPKDNGPEILPEKY---LDINGEVINPIARDYPDEFI--QTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQI  171 (465)
T ss_dssp             EETTSCBCSCCCCCCCSEE---EESSCCCBCTTTEECCCCBC--BCSCHHHHTTSCCBTTCBCCEEECTTSCHHHHHHHH
T ss_pred             eccCCcccCCCCCCcccce---eeccCcccCchhccCccccc--ccCceEEecccccccCCEEEEeCCCCcChHHHHHHH
Confidence            4678899888776644333   23567788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++|+..         ++..++++|||++||||.+|+++|.+++.+.|+|+||++|++|+|+||.+|++++|+|+++||||
T Consensus       172 a~~~~~---------~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a~~~a~tiAEyf  242 (465)
T 3vr4_D          172 ARQATV---------LDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYL  242 (465)
T ss_dssp             HHHCBC---------SSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHh---------ccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            999853         11135679999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      ||++|+|||+++||+||||+|+||+|+++||||+++||||++|+.|++||||||++++++||||+|++|++|+||++|||
T Consensus       243 rd~~G~~VLl~~DslTr~A~A~REisl~lge~P~~~GYp~~vf~~l~~l~ERAg~~~~~~GSIT~i~tv~~~~dD~~~pI  322 (465)
T 3vr4_D          243 AYEKGMHVLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGLKGSVTQIPILTMPEDDKTHPI  322 (465)
T ss_dssp             HHTTCCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGSCTTHHHHHHHHHTSCEEETTCSCEEEEEEEEECGGGCTTSHH
T ss_pred             HHhcCCeEEEEEcChHHHHHHHHHHHhhcCCCCccccCCchHHHHhHHHHHhhhccCCCCCcEEEEEEEEecCCCcccch
Confidence            99559999999999999999999999999999999999999999999999999999767999999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |++             +|+.+++|||||+..|.||.+.
T Consensus       323 ~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~  360 (465)
T 3vr4_D          323 PDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRLKD  360 (465)
T ss_dssp             HHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGG
T ss_pred             hHHHhhhcCeEEEEcHHHHhCCCCCCCCccccchhcch
Confidence            996             8899999999999999999864

>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=100.00  E-value=1.5e-69  Score=533.74  Aligned_cols=251  Identities=50%  Similarity=0.791  Sum_probs=231.1

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+..-+   ....++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        98 ~d~lG~PiDg~~~i~~~~---~~~i~~~~p~p~~R~~~~e~l--~TGir~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~I  172 (469)
T 2c61_A           98 LSGSGEPRDGGPRIVPDQ---LLDINGAAMNPYARLPPKDFI--QTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQI  172 (469)
T ss_dssp             EETTSCBSSSCCCCCCSE---EEESSSCSSCCBCSCCCCSBC--BCSCHHHHTTSCCBTTCBCCEEECTTSCHHHHHHHH
T ss_pred             EcccCCCCCCCCCCCccc---cccccCccCCccccccccccc--ceeeEeeeeeeccccCCEEEEECCCCCCHHHHHHHH
Confidence            567899887766553222   223456678899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++++..         ||+.++++|||++||||.+|+++|++++.+.++|+||++|++|+|+||.+|++++|+|+++||||
T Consensus       173 a~~~~~---------n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyf  243 (469)
T 2c61_A          173 ARQASV---------PGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYL  243 (469)
T ss_dssp             HHHCBC---------TTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhh---------ccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            999853         55555689999999999999999999999999999999999999999999999999999999999


Q ss_pred             HH-hcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         162 AY-QCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       162 r~-~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      || + |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++||||||++++++||||+|++|++|+||++||
T Consensus       244 rdd~-G~dVLl~~DsltR~A~A~rEis~~lge~P~~~Gyp~~l~~~l~~l~ERAg~~~~~~GSIT~i~~v~~~~dD~~dP  322 (469)
T 2c61_A          244 AYEH-GMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAKGSVTQIPILSMPGDDITHP  322 (469)
T ss_dssp             HHHH-CCEEEEEEECHHHHHHHHTTSGGGTTCCTTSTTCCTHHHHHHHHHHTSCEEBTTSSCEEEEEEEEECCSCTTTSC
T ss_pred             HHhc-CCeEEEEEeCHHHHHHHHHHHHHhcCCCCcccCcCchhhhhhhhHHhhccccCCCCCceeeeeeeecCCCCcCcc
Confidence            95 6 999999999999999999999999999999999999999999999999999976789999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhhc
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYERA  267 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r~  267 (293)
                      ||++             +|+.+++|||||+..|.||+...
T Consensus       323 I~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~~~~  362 (469)
T 2c61_A          323 IPDLSGYITEGQIVVARELHRKGIYPPINVLPSLSRLMNS  362 (469)
T ss_dssp             CCCCGGGGTTEEEEBCHHHHHTTCSSCBCTTTCEETTGGG
T ss_pred             hHHHHhhccCcEEEEcHHHHhCCCCCccCccccccccchh
Confidence            9997             78899999999999999998763

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=100.00  E-value=1.3e-69  Score=532.05  Aligned_cols=256  Identities=48%  Similarity=0.743  Sum_probs=231.9

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+...++   ...++.+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        93 ~d~lG~PiD~~~~i~~~~~---~~i~~~~p~p~~R~~~~e~l--~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L~~~I  167 (464)
T 3gqb_B           93 FNGIGKPIDGLPPITPEKR---LPITGLPLNPVARRKPEQFI--QTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQI  167 (464)
T ss_dssp             EETTCCBCSSSCCCCCSEE---EETTCCCBCGGGBCCCCCBC--BCSCHHHHTTSCCBTTCBCCEEEETTSCHHHHHHHH
T ss_pred             eccCCcccCCCccccCcce---eeccCCCCChhhccCccccc--cCcceeeecccccccCCEEEEecCCCCCchHHHHHH
Confidence            4678999888776654333   33567788999999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCC--CCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDD--SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE  159 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~--~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAE  159 (293)
                      ++|+...    .++.++  ..++.+|||++||||.+|+++|++++.+.|+|+||++|++|+|+||.+|++++|+|+++||
T Consensus       168 a~~~~a~----~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAE  243 (464)
T 3gqb_B          168 ARQATVR----PDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAE  243 (464)
T ss_dssp             HHHCBCC----HHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHH
T ss_pred             HHHHHhc----ccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            9998531    111122  1246799999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccc
Q psy5595         160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       160 yfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |||+++|+|||+++||+||||+|+||+|+++||||+++||||++|+.|++||||||++++++||||++|+|++|+||++|
T Consensus       244 yfrd~~G~~VLl~~DdlTr~A~A~REisl~lge~P~~~GYp~~~f~~l~~l~ERag~~~~~~GSIT~l~~v~~~~dD~~~  323 (464)
T 3gqb_B          244 YLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVTQIPILSMPDDDRTH  323 (464)
T ss_dssp             HHHHTTCCEEEEEEETHHHHHHHHHHHHHTTTCCBCGGGSBTTHHHHHHHHHTSCBCBTTCSCEEEEEEEEEETTSCTTS
T ss_pred             HHHHhcCCeEEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHHHHHhhcccCCCCCcEEEEEEEEccCCCccC
Confidence            99995599999999999999999999999999999999999999999999999999997679999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |||++             +|+.+++|||||+..|.||.+.
T Consensus       324 pi~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~  363 (464)
T 3gqb_B          324 PIPDLTGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMN  363 (464)
T ss_dssp             HHHHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGG
T ss_pred             chhHHHhhhcCeEEEEcHHHHhCCCCCCcCcccchhhcch
Confidence            99996             8899999999999999998754

>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=100.00  E-value=2.5e-68  Score=527.06  Aligned_cols=245  Identities=21%  Similarity=0.297  Sum_probs=224.9

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHH-HH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIA-AQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~-~~   80 (293)
                      ++..|++.+.+..+...++   ...+..+.||..|.++++||  +||||+||+|+|||||||++|||++|+|||+|+ .+
T Consensus       108 ~d~lG~PiDg~g~i~~~~~---~pi~~~ap~~~~R~~v~epl--~TGikaID~l~PigrGQR~~Ifg~~g~GKT~l~l~~  182 (513)
T 3oaa_A          108 VNTLGAPIDGKGPLDHDGF---SAVEAIAPGVIERQSVDQPV--QTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDA  182 (513)
T ss_dssp             EETTSCBTTCSCSCCCSCE---EESSCCCCCSSSCCCCCCBC--CCSCHHHHHHSCCBTTCBCEEEESSSSSHHHHHHHH
T ss_pred             hhhcCcCccCCCCCCccce---eecccCCCCccccCCcCccc--ccceeeeccccccccCCEEEeecCCCCCcchHHHHH
Confidence            4677999888776543332   33556678899999999999  999999999999999999999999999999995 68


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |++|..              ++.+|||++||||.+|+.+|.+++.++|+|+||++|++|+|+||.+|+++||+|+++|||
T Consensus       183 I~n~~~--------------~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEy  248 (513)
T 3oaa_A          183 IINQRD--------------SGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEY  248 (513)
T ss_dssp             HHTTSS--------------SSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcc--------------CCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHHHHHHHHHHHH
Confidence            888753              467899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-------------CCCcceeee
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-------------GRNGSITQI  227 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-------------~~~GSiT~i  227 (293)
                      |||+ |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++||||||+++             +++||||++
T Consensus       249 frd~-G~dVLli~Dsltr~A~A~REisl~lgepP~r~gYP~~vf~~~srLlERAg~~~~~~~~~~~~~~~~g~~GSITal  327 (513)
T 3oaa_A          249 FRDR-GEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTAL  327 (513)
T ss_dssp             HHHT-TCEEEEEEETHHHHHHHHHHHHHHTTCCBCTTSCBTTHHHHHHHHHTTCSEECHHHHHHHHTTSCCSCCEEEEEC
T ss_pred             HHhc-CCCEEEEecChHHHHHHHHHHHHhcCCCCcccCCCchhhhhcchHHHHHhhcccccchhccccccCCCCcceEEE
Confidence            9998 99999999999999999999999999999999999999999999999999973             348999999


Q ss_pred             eEEEecCCCcccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         228 PILTMPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       228 ~~v~~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|++|+||++||||++             +|+.+++|||||+..|.||...
T Consensus       328 ~~V~~~~dD~s~pIp~~~~si~DGqIvLsr~La~~giyPAIdvl~SvSRv~~  379 (513)
T 3oaa_A          328 PIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPGISVSRVGG  379 (513)
T ss_dssp             CEEECGGGCCSSHHHHHHHHHSSEEEEECHHHHTTSCCSCBCTTTCEESSGG
T ss_pred             EEEEcCCCCccCcchHhhhccCCeEEEEehhHHhCCCCCccCccccccccCc
Confidence            99999999999999996             8899999999999999988753

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=100.00  E-value=1.3e-67  Score=522.42  Aligned_cols=245  Identities=20%  Similarity=0.273  Sum_probs=226.0

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~   80 (293)
                      .+..|++.+....+...+   .......+.||..|.++++++  +||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus       108 vd~lG~PiDg~g~i~~~~---~~pi~~~~p~~~~R~~v~epl--~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~  182 (502)
T 2qe7_A          108 VNPLGQPLDGRGPIETAE---YRPIESPAPGVMDRKSVHEPL--QTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDT  182 (502)
T ss_dssp             ECTTCCBSSCSCCCCCCC---EEESSCCCCCTTSBCCCCSBC--CCSCHHHHHSSCCBTTCBCEEEECSSSCHHHHHHHH
T ss_pred             EccCCCCCCCCCCCCCCc---eeeccCCCCCcccccCCCCcc--ccceeecccccccccCCEEEEECCCCCCchHHHHHH
Confidence            467899988877654332   334556777899999999999  99999999999999999999999999999999 559


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+||+.              ++.+|||++||||.+|+++|++++.+.|+|+||++|++|+|+||.+|++++|+|+++|||
T Consensus       183 I~~~~~--------------~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEy  248 (502)
T 2qe7_A          183 IINQKG--------------QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEY  248 (502)
T ss_dssp             HHGGGS--------------CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhc--------------CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            999874              356899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~  238 (293)
                      |||+ |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||++|+|++|+||++
T Consensus       249 frd~-G~dVLl~~Dsltr~A~A~REisl~lgepP~~~gYpg~vf~~~~rL~ERAg~~~~~~~~GSITal~~v~~~~dD~s  327 (502)
T 2qe7_A          249 FMYK-GKHALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDVS  327 (502)
T ss_dssp             HHTT-TCEEEEEEECHHHHHHHHHHHHTTTTCCCCSTTSCTTHHHHHHHHHTSCCBBCTTTTCCEEEEEEEEECSTTCCS
T ss_pred             HHHc-CCcEEEEEecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHHHHHHHhhhcccccCCCcceeEEEEEEccCCCcc
Confidence            9998 999999999999999999999999999999999999999999999999999863  4799999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||||++             +|+.+++|||||+..|.||+..
T Consensus       328 ~pI~~~~~si~DgqI~Lsr~La~~g~~PAIdvl~S~SRv~~  368 (502)
T 2qe7_A          328 AYIPTNVISITDGQIFLESDLFYSGVRPAVNVGISVSRVGG  368 (502)
T ss_dssp             SHHHHHHHTTSSEEEEECHHHHTTTCSSCBCTTTCEESSGG
T ss_pred             cchhHHHhhhcCcEEEEehhHhhCCCCceeCcccccccCCC
Confidence            999996             7899999999999999999754

>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=100.00  E-value=1.4e-67  Score=522.86  Aligned_cols=246  Identities=22%  Similarity=0.315  Sum_probs=226.7

Q ss_pred             CCcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HH
Q psy5595           1 MKAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AA   79 (293)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~   79 (293)
                      +++..|++.+.+..+...+   .......+.||..|.++++++  +||||+||+|+|||||||++|||++|+|||+| +.
T Consensus       108 Vvd~lG~PiDg~g~i~~~~---~~pi~~~~p~~~~R~~v~epl--~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~  182 (507)
T 1fx0_A          108 VINALAKPIDGRGEITASE---SRLIESPAPGIMSRRSVYEPL--QTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATD  182 (507)
T ss_dssp             CCCSSSCCSSSSCCCCCSE---EEESSCCCCCSSSBCCCCSBC--CCSCTTTTTTSCCBTTCBCBEEESSSSSHHHHHHH
T ss_pred             EEccCCcCCCCCCCCCCCc---eeeccCCCCCcccccccCCcc--cccceecccccccccCCEEEEecCCCCCccHHHHH
Confidence            3577899998877654333   233556777899999999999  99999999999999999999999999999999 55


Q ss_pred             HHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHH
Q psy5595          80 QICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAE  159 (293)
Q Consensus        80 ~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAE  159 (293)
                      +|+||+.              ++.+|||++||||.+|+++|++++.+.|+|+||++|++|+|+||.+|+++||+|+++||
T Consensus       183 ~I~~~~~--------------~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAE  248 (507)
T 1fx0_A          183 TILNQQG--------------QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAE  248 (507)
T ss_dssp             HHHTCCT--------------TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHH
T ss_pred             HHHHhhc--------------CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            8888873              35689999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCc
Q psy5595         160 FLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDF  237 (293)
Q Consensus       160 yfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~  237 (293)
                      ||||+ |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||++|+|++|+||+
T Consensus       249 yfrd~-G~dVLli~Dsltr~A~A~REisl~lge~P~~~gYp~~vf~~~srLlERAg~~~~~~~~GSITal~~v~~~~~D~  327 (507)
T 1fx0_A          249 YFMYR-ERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDV  327 (507)
T ss_dssp             HHHHT-TCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCT
T ss_pred             HHHHc-CCcEEEEEecHHHHHHHHHHHHHhcCCCCccccCCchHhhhhHHHHHhhhhccccCCCcceeeeeeeeccCCCc
Confidence            99998 999999999999999999999999999999999999999999999999999863  479999999999999999


Q ss_pred             ccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         238 KVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       238 ~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +||||++             +|+.+++|||||+..|.||+..
T Consensus       328 s~pI~~~~~si~DgqIvLsr~La~~g~yPAIdvl~S~SR~~~  369 (507)
T 1fx0_A          328 SAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGS  369 (507)
T ss_dssp             TSHHHHHHHTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGG
T ss_pred             ccchHHHHHhhcCcEEEEehhHhhCCCCCccchhhhhccccc
Confidence            9999986             8999999999999999999764

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=100.00  E-value=1.3e-67  Score=522.95  Aligned_cols=245  Identities=22%  Similarity=0.276  Sum_probs=225.3

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~   80 (293)
                      .+..|++.+.+..+...+   .......+.||..|.++++++  +||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus       121 vd~lG~PiDg~g~i~~~~---~~pi~~~~P~~~~R~~v~epl--~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~  195 (515)
T 2r9v_A          121 VNPLGEPLDGKGPINAKN---FRPIEIKAPGVIYRKPVDTPL--QTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDT  195 (515)
T ss_dssp             ECTTSCBCSSSCCCCCSE---EEESCCCCCCGGGBCCCCSEE--CCSCHHHHHHSCEETTCBEEEEEETTSSHHHHHHHH
T ss_pred             EcCCCCCcCCCCCCCccc---eeecccCCCCcccccCCCcch--hcCccccccccccccCCEEEEEcCCCCCccHHHHHH
Confidence            467899988776654333   233456677899999999999  99999999999999999999999999999999 559


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+||+.              ++.+|||++||||.+|+++|++++.+.|+|+||++|++|+|+||.+|+++||+|+++|||
T Consensus       196 I~~~~~--------------~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEy  261 (515)
T 2r9v_A          196 IINQKG--------------QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEY  261 (515)
T ss_dssp             HHTTTT--------------TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhc--------------CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            998874              356899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~  238 (293)
                      |||+ |+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||+||+|++|+||++
T Consensus       262 frd~-G~dVLli~DslTr~A~A~REisl~lgepP~r~gYp~~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~~D~s  340 (515)
T 2r9v_A          262 FAYS-GRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDIS  340 (515)
T ss_dssp             HHTT-TCEEEEEEETHHHHHHHHHHHHHTSCCCTTCCCCCCCHHHHHHHHHTTCEEBCTTTTSCEEEEEEEEEESTTCTT
T ss_pred             HHHc-CCcEEEEeccHHHHHHHHHHHhhhcCCCCCcccCChhHHHHhHHHHHHHhhccccCCCcceEEeeeeeccCCCcc
Confidence            9998 999999999999999999999999999999999999999999999999999863  4799999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||||++             +|+.+++|||||+..|.||+..
T Consensus       341 ~pI~~~~~si~DGqI~Lsr~La~~g~yPAIdvl~SvSRv~~  381 (515)
T 2r9v_A          341 AYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSVSRVGG  381 (515)
T ss_dssp             SHHHHHHHHTSSEEEEBCHHHHHHTCSSCBCTTTCEEGGGT
T ss_pred             ccchhhhccccceEEEEchHHHhCCCCCeeccccccccCCc
Confidence            999996             7889999999999999999764

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=100.00  E-value=1.9e-67  Score=520.96  Aligned_cols=245  Identities=20%  Similarity=0.280  Sum_probs=225.6

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      +++.|++.+....+...+   .......+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+++|
T Consensus       111 ~d~lG~PiD~~~~i~~~~---~~pi~~~~p~~~~r~~~~e~l--~TGirvID~l~pigkGqr~gIfgg~GvGKT~L~~~l  185 (498)
T 1fx0_B          111 FNVLGEPVDNLRPVDTRT---TSPIHRSAPAFTQLDTKLSIF--ETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIMEL  185 (498)
T ss_dssp             ECTTSCBCSSSSCCCCSE---EEESCCCCCCGGGCCCCCCCC--CCSCTTHHHHSCCCTTCCEEEEECSSSSHHHHHHHH
T ss_pred             EcccccCCCCcCCcCCCc---eeccccCCCchhhhccccccc--ccceeEeeeecccccCCeEEeecCCCCCchHHHHHH
Confidence            578899998876653222   333556777899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccc-------cEEEEeeCCCCchhhhhchHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSME-------NVCLFLNLANDPTIERIITPRLA  154 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~-------~tvvv~stsd~~~~~r~~a~~~a  154 (293)
                      +++..+.            ++++|||++||||.+|+++|++++.+.++++       |+++|++|+|+||.+|++++++|
T Consensus       186 ~~~~a~~------------~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~a  253 (498)
T 1fx0_B          186 INNIAKA------------HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTA  253 (498)
T ss_dssp             HHHTTTT------------CSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHH
T ss_pred             HHHHHhh------------CCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCHHHHHHHHHHH
Confidence            9987542            3579999999999999999999999999998       99999999999999999999999


Q ss_pred             HHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecC
Q psy5595         155 LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPN  234 (293)
Q Consensus       155 ~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~  234 (293)
                      +++||||||++|+|||+++||+||||+|+||||+++||+|+++||||++|+.|++|||||++  +++||||+|++|++|+
T Consensus       254 ltiAEyfrd~~G~dVLl~~DsitR~A~A~rEvs~~lge~Ps~~GYpp~l~~~l~~L~ERag~--~~~GSIT~i~tV~v~~  331 (498)
T 1fx0_B          254 LTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITS--TKEGSITSIQAVYVPA  331 (498)
T ss_dssp             HHTHHHHTTTSCCEEEEEEECSHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHHHHTSSSSSC--CTTCEECCEEEEECGG
T ss_pred             HHHHHHHHHhcCCcEEEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHHHHHHHhccC--CCCCceeeeEEEEccC
Confidence            99999999944999999999999999999999999999999999999999999999999998  4689999999999999


Q ss_pred             CCcccccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         235 DDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       235 ~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      ||++|||||+             +|+.+++|||||+..|.||+.
T Consensus       332 dD~tdPi~d~~~~ilDG~ivLsR~La~~giyPAID~l~S~SR~~  375 (498)
T 1fx0_B          332 DDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTML  375 (498)
T ss_dssp             GCSSSHHHHHHHTTCSEEEEBCSTTTTTTCSSCBCSSSCCBTTC
T ss_pred             CCcCCcchHHHHHhhCceEEehhhHHhCCCCceeccccccccCC
Confidence            9999999985             899999999999999999985

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=100.00  E-value=2.9e-67  Score=520.84  Aligned_cols=253  Identities=18%  Similarity=0.256  Sum_probs=227.4

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHH-HHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L-~~~   80 (293)
                      .+..|++.+....+...+   .......+.||..|.++++++  +||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus       108 vd~lG~PiDg~g~i~~~~---~~pi~~~~p~~~~R~~v~epl--~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~  182 (510)
T 2ck3_A          108 VDALGNAIDGKGPIGSKA---RRRVGLKAPGIIPRISVREPM--QTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDT  182 (510)
T ss_dssp             ECTTSCBCSSSCCCCCSE---EEESSCCCCCSTTBCCCCSBC--CCSCHHHHHHSCCBTTCBCEEEESTTSSHHHHHHHH
T ss_pred             EccCCcCcCCCCCCCccc---eeecccCCCCcccccccCccc--cccceeeccccccccCCEEEEecCCCCCchHHHHHH
Confidence            467899988877654333   233556777899999999999  99999999999999999999999999999999 569


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+||+.++.- ++   |+  ++++|||++||||.+|+++|++++.+.|+|+||++|++|+|+||.+|+++||+|+++|||
T Consensus       183 I~~q~~~~~~-~~---~~--~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEy  256 (510)
T 2ck3_A          183 IINQKRFNDG-TD---EK--KKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEY  256 (510)
T ss_dssp             HHHTHHHHTS-CC---TT--TCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhccc-cc---cC--CCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            9999863100 00   11  346899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCcc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFK  238 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~  238 (293)
                      |||+ |+|||+++|||||||+|+||+|+++||||+++||||++|+.|++|+||||+++.  ++||||++|+|++|+||++
T Consensus       257 frd~-G~dVLli~Dsltr~A~A~REisl~lgepP~r~gYpg~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~dD~s  335 (510)
T 2ck3_A          257 FRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVS  335 (510)
T ss_dssp             HHTT-TCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCEEBCGGGTSCEEEEEEEEECSTTCTT
T ss_pred             HHHc-CCcEEEEEcCHHHHHHHHHHHHHhcCCCCccCCcCchHHHhhHHHHHhhhcccccCCCcceeEeeeeccCCCCcc
Confidence            9998 999999999999999999999999999999999999999999999999999863  4799999999999999999


Q ss_pred             cccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         239 VSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       239 dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||||++             +|+.+++|||||+..|.||+..
T Consensus       336 ~pI~~~~~si~DgqI~Lsr~La~~gi~PAIdvl~SvSRv~~  376 (510)
T 2ck3_A          336 AYIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGS  376 (510)
T ss_dssp             SHHHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGG
T ss_pred             ccchHhhhcccceEEEEehhHhhCCCCCcccchhccccccc
Confidence            999996             7889999999999999999754

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=100.00  E-value=9.9e-67  Score=514.11  Aligned_cols=245  Identities=21%  Similarity=0.290  Sum_probs=224.1

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..|++.+....+..   .........+.||..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+++|
T Consensus        99 ~d~lG~PiDg~~~~~~---~~~~pi~~~~P~~~~r~~~~e~l--~TGir~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i  173 (482)
T 2ck3_D           99 MNVIGEPIDERGPIKT---KQFAAIHAEAPEFVEMSVEQEIL--VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMEL  173 (482)
T ss_dssp             ECTTSCBCSSSCSCCC---CCEEESCCCCCCGGGCCCCCCEE--CCSCHHHHHHSCEETTCEEEEEECTTSSHHHHHHHH
T ss_pred             EcccCcCcCCcCCCCc---cccccccccCCchHHhcccCcCC--ccceEEEecccccccCCeeeeecCCCCChHHHHHHH
Confidence            5678888877665432   23334556677899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccc------cEEEEeeCCCCchhhhhchHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSME------NVCLFLNLANDPTIERIITPRLAL  155 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~------~tvvv~stsd~~~~~r~~a~~~a~  155 (293)
                      +++..+.            ++++|||++||||.+|+++|++++.+.++++      |+++|++|+|+||.+|++++|+|+
T Consensus       174 ~~~~~~~------------~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~  241 (482)
T 2ck3_D          174 INNVAKA------------HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGL  241 (482)
T ss_dssp             HHHTTTT------------CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHhhHhh------------CCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCHHHHHHHHHHHH
Confidence            9987532            3578999999999999999999999999998      999999999999999999999999


Q ss_pred             HHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCC
Q psy5595         156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPND  235 (293)
Q Consensus       156 tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~  235 (293)
                      ++||||||++|+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|||||++  +++||||+|++|++|+|
T Consensus       242 tiAEyfrd~~G~dVLll~DsitR~A~A~rEis~~lge~P~~~GYpp~l~~~l~~l~ERag~--~~~GSIT~i~tv~v~~d  319 (482)
T 2ck3_D          242 TVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITT--TKKGSITSVQAIYVPAD  319 (482)
T ss_dssp             HHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSC--CSSCCEEEEEEEECGGG
T ss_pred             HHHHHHHHhcCCcEEEEeccHHHHHHHHHHhhhhcCCCCccccCchhHHHHhHHHHHhhcC--CCCCceeeeEEEEecCC
Confidence            9999999933999999999999999999999999999999999999999999999999997  36899999999999999


Q ss_pred             Ccccccccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         236 DFKVSAARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       236 d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |++|||||+             +|+.+++|||||+..|.||+.
T Consensus       320 D~tdPi~d~~~~i~dG~ivLsr~La~~giyPAIDvl~S~SR~~  362 (482)
T 2ck3_D          320 DLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIM  362 (482)
T ss_dssp             CTTSHHHHHHGGGCSEEEEBCHHHHTTTCSSCBCTTSCEETTC
T ss_pred             CCCCccHHHHHHhcCeEEEEcHHHHhCCCCCccCcccccccCC
Confidence            999999985             889999999999999999985

>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=100.00  E-value=2.9e-65  Score=511.23  Aligned_cols=237  Identities=26%  Similarity=0.396  Sum_probs=214.8

Q ss_pred             CCceeEEEecceeecccccC-------CCc-cccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          12 PDDLLYLEFLTKFEKNFVSQ-------EGE-RSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        12 ~~~~~~~e~~~~~~~~~~~~-------~p~-~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +|.++++|..+...+..+.+       +|. .|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+++|++
T Consensus       177 ~~~v~~i~~~~g~~~i~~~~~wpv~~~~p~~~R~~~~epl--~TGirvID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~  254 (600)
T 3vr4_A          177 DDPICVIETEQGLKELTMMQKWPVRRGRPIKQKLNPDVPM--ITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAK  254 (600)
T ss_dssp             TSCCEEEEETTEEEEECSCEEEETTSCCCCSEEECCCSBC--CCCCHHHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceeEEEEeccCCcccccccccccccCCCchhhccCCCcee--cccchhhhccCCccCCCEEeeecCCCccHHHHHHHHHh
Confidence            56677777643332222111       354 688999999  99999999999999999999999999999999999999


Q ss_pred             HhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhh-------CCccccEEEEeeCCCCchhhhhchHHHHHH
Q psy5595          84 QAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEE-------NGSMENVCLFLNLANDPTIERIITPRLALT  156 (293)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~-------~g~~~~tvvv~stsd~~~~~r~~a~~~a~t  156 (293)
                      |+.               .++|||++||||.+|++++.+++.+       .++|+||++|++|+|+||.+|++++|+|++
T Consensus       255 ~~~---------------~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~alt  319 (600)
T 3vr4_A          255 WSD---------------VDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGIT  319 (600)
T ss_dssp             HSS---------------CSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHHHH
T ss_pred             ccC---------------CCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHH
Confidence            973               5799999999999999999999865       678999999999999999999999999999


Q ss_pred             HHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeeeEEE
Q psy5595         157 TAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILT  231 (293)
Q Consensus       157 iAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~~v~  231 (293)
                      +||||||+ |+|||+++||+||||+|+||+|+++||+|+++|||+++|+.+++||||||+++     +++||||++++|+
T Consensus       320 iAEyfrd~-G~dVLl~~Ds~tR~A~A~rEiS~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~  398 (600)
T 3vr4_A          320 IAEYFRDM-GYDVAIMADSTSRWAEALREMSGRLEEMPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVS  398 (600)
T ss_dssp             HHHHHHTT-TCEEEEEEECHHHHHHHHHHHHHHTTCCBCGGGCBTTHHHHHHHHHTTSEEEECSSTTCCEEEEEEEEEEC
T ss_pred             HHHHHHHc-CCCEEEEecchHHHHHHHHHHHhccCCCCccccCCchhhhHHHHHHHhhccccccCCCCCCcceEEEEEEE
Confidence            99999998 99999999999999999999999999999999999999999999999999974     3689999999999


Q ss_pred             ecCCCcccccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         232 MPNDDFKVSAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       232 ~~~~d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      +|+||++||||++             +|+.+++|||||+..|.|++..
T Consensus       399 ~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~giyPAId~l~S~SR~~~  446 (600)
T 3vr4_A          399 PSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFPSINWIQSYSLYST  446 (600)
T ss_dssp             CSSSCTTSHHHHHHHTTCCEECCBCHHHHTTTCSSCBCTTTCEETTHH
T ss_pred             CCCCCCCCcchhhhhhhccEEEEEhhhHHhCCCCCccCcccchhhhcc
Confidence            9999999999986             8899999999999999999975

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=100.00  E-value=2.3e-65  Score=510.24  Aligned_cols=216  Identities=26%  Similarity=0.410  Sum_probs=205.5

Q ss_pred             Cc-cccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecC
Q psy5595          33 GE-RSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMG  111 (293)
Q Consensus        33 p~-~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iG  111 (293)
                      |. .|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+++|++|+.               .++|||++||
T Consensus       194 p~~~R~~~~epl--~TGirvID~l~PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~---------------~~v~V~~~iG  256 (578)
T 3gqb_A          194 PVQRKLDPNTPF--LTGMRILDVLFPVAMGGTAAIPGPFGSGKSVTQQSLAKWSN---------------ADVVVYVGSG  256 (578)
T ss_dssp             CCSEEECSCSEE--CCSCHHHHTTSCEETTCEEEECCCTTSCHHHHHHHHHHHSS---------------CSEEEEEEEE
T ss_pred             ChHHhccCCCcc--cccchhhhhcccccCCCEEeeeCCCCccHHHHHHHHHhccC---------------CCEEEEEEec
Confidence            44 688999999  99999999999999999999999999999999999999973               5799999999


Q ss_pred             ccchhHHHHHHhhhh-------CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHH
Q psy5595         112 VNMETARFFKQDFEE-------NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALR  184 (293)
Q Consensus       112 er~e~~~~~~~~l~~-------~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~r  184 (293)
                      ||.+|++++.+++.+       .++|+||++|++|+|+||.+|++++|+|+++||||||+ |+|||+++||+||||+|+|
T Consensus       257 ER~~Ev~e~~~~~~el~d~~~G~~~~~rtvvv~~tsd~p~~~R~~~~~~altiAEyfrd~-G~dVLl~~Ds~tR~A~A~r  335 (578)
T 3gqb_A          257 ERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQ-GFSVALMADSTSRWAEALR  335 (578)
T ss_dssp             ECHHHHHHHHTTGGGCBCTTTSSBSGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHT-TCEEEECCSCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHc-CCCEEEEecChHHHHHHHH
Confidence            999999999999865       57899999999999999999999999999999999998 9999999999999999999


Q ss_pred             HHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccC---CCCcceeeeeEEEecCCCcccccccc-------------ccCC
Q psy5595         185 EVSAAREEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSITQIPILTMPNDDFKVSAARE-------------EVPG  248 (293)
Q Consensus       185 eisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~---~~~GSiT~i~~v~~~~~d~~dpi~~~-------------~la~  248 (293)
                      |+|+++||+|+++||||++|+.+++||||||+++   +++||||++++|++|+||++||||++             +|+.
T Consensus       336 Eis~~lge~P~~~GYp~~l~s~l~~l~ERAg~~~~~~~~~GSIT~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~  415 (578)
T 3gqb_A          336 EISSRLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAF  415 (578)
T ss_dssp             HHHHHTTCCCCSSSSCTTHHHHHHHHHTTCEEEECTTSCEEEEEEEEECCCTTTCTTSHHHHHHHTTCSEECCBCHHHHH
T ss_pred             HHHHhccCCCccccCCchhhhHHHHHHHhhcCcccCCCCCcceEEEEEEEcCCCCCCCcchHHHhhhcCceEEECHHHHh
Confidence            9999999999999999999999999999999985   46899999999999999999999986             7889


Q ss_pred             CCCCCCcccccccchhhh
Q psy5595         249 RRGFPGYMYTNLATIYER  266 (293)
Q Consensus       249 ~r~~Pai~~~~~~s~~~r  266 (293)
                      +++|||||+..|.|+++.
T Consensus       416 ~g~yPAId~l~S~SR~~~  433 (578)
T 3gqb_A          416 RRHFPAINWNGSYSLFTS  433 (578)
T ss_dssp             HTCSSCBCTTTCEESSHH
T ss_pred             CCCCCCcCcccchhhccc
Confidence            999999999999999975

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=100.00  E-value=4.5e-65  Score=508.34  Aligned_cols=215  Identities=28%  Similarity=0.446  Sum_probs=189.0

Q ss_pred             ccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc
Q psy5595          34 ERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN  113 (293)
Q Consensus        34 ~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer  113 (293)
                      ..|.+++++|  +||||+||+|+|||||||++|||++|+|||+|+++|++|+.               .++|||++||||
T Consensus       202 ~~R~~~~epl--~TGirvID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~~---------------~~~~V~~~iGER  264 (588)
T 3mfy_A          202 KEKLPPEVPL--ITGQRVIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWSD---------------AQVVIYIGCGER  264 (588)
T ss_dssp             SEEECSCSEE--CCSCHHHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHSS---------------CSEEEEEECCSS
T ss_pred             hhhccCCccc--ccCcchhhccCCcccCCeEEeecCCCCCHHHHHHHHHhccC---------------CCEEEEEEeccc
Confidence            4688999999  99999999999999999999999999999999999999873               579999999999


Q ss_pred             chhHHHHHHhhhh-------CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHHHHH
Q psy5595         114 METARFFKQDFEE-------NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREV  186 (293)
Q Consensus       114 ~e~~~~~~~~l~~-------~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~rei  186 (293)
                      .+|++++.+++.+       .++|+||++|++|+|+||.+|++++|+|+++||||||+ |+|||+++||+||||+|+||+
T Consensus       265 ~~Ev~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~-G~dVLl~~DsltR~A~A~rEi  343 (588)
T 3mfy_A          265 GNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDM-GYDVALMADSTSRWAEALREI  343 (588)
T ss_dssp             SSHHHHHHHHTTTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHT-TCEEEEEEECTTTCCCCC---
T ss_pred             HHHHHHHHHHHHHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHc-CCCEEEeecchHHHHHHHHHH
Confidence            9999999999865       57899999999999999999999999999999999998 999999999999999999999


Q ss_pred             hhhcCCCCCCCCCCCchhhhHHHHhhhhcccC-----CCCcceeeeeEEEecCCCcccccccc-------------ccCC
Q psy5595         187 SAAREEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDDFKVSAARE-------------EVPG  248 (293)
Q Consensus       187 sl~~ge~p~~~gyp~~lf~~la~l~ERag~~~-----~~~GSiT~i~~v~~~~~d~~dpi~~~-------------~la~  248 (293)
                      |+++||||+++||||++|+.+++||||||+++     +++||||++++|++|+||++||||++             +|+.
T Consensus       344 s~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~sdpi~~~~~~i~dg~i~Lsr~La~  423 (588)
T 3mfy_A          344 SGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKVFWALDADLAR  423 (588)
T ss_dssp             -------------CCHHHHHHHHHHTTCEEEECSSSSCCEEEEEEEEECCCTTSCSSCSHHHHHHHHCSEECCBCHHHHH
T ss_pred             HHhccCCCccccCCchhhhhhhHHHhccccccccCCCCCCcceEEEEEEECCCCCCCCcchHHHHHhccCeeecCHHHHh
Confidence            99999999999999999999999999999974     36899999999999999999999986             8899


Q ss_pred             CCCCCCcccccccchhhh
Q psy5595         249 RRGFPGYMYTNLATIYER  266 (293)
Q Consensus       249 ~r~~Pai~~~~~~s~~~r  266 (293)
                      +++|||||+..|.|+++.
T Consensus       424 ~g~yPAId~l~S~SR~~~  441 (588)
T 3mfy_A          424 RRHFPAINWLTSYSLYVD  441 (588)
T ss_dssp             TTCSSCBCTTTCEETTHH
T ss_pred             CCCCCCcCcccchhhhcc
Confidence            999999999999999975

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=100.00  E-value=6e-62  Score=469.94  Aligned_cols=231  Identities=15%  Similarity=0.152  Sum_probs=211.1

Q ss_pred             CceeEEEecce----------eecccccCCCccccCCC-CccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595          13 DDLLYLEFLTK----------FEKNFVSQEGERSFTPR-DLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus        13 ~~~~~~e~~~~----------~~~~~~~~~p~~r~~p~-e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+|++++..+.          .+++..|.||..|.+++ +++  +||+|+||+|+|||||||++|||++|+|||+|+++|
T Consensus       118 ~~l~~v~~vng~~p~~~~~r~~fe~l~Pi~P~~R~~le~e~~--~tGiraID~l~PigrGQR~lIfg~~g~GKT~Ll~~I  195 (427)
T 3l0o_A          118 FAMIKIEAINYRPVEAVNDRVNFDNLTPDYPRERFILETDPK--IYSTRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEI  195 (427)
T ss_dssp             EEEEEEEEETTEEC----CCCCGGGSCEECCCSBCCCCCSTT--CHHHHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHH
T ss_pred             ccceEEEecCCCChHHhccccccccCCCCCchhhccccccch--hccchhhhhcccccCCceEEEecCCCCChhHHHHHH
Confidence            46666664332          23667889999999999 999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      ++++.+.         +  ++..|||++||||++|+++|++++.  |     +||++|+|+||.+|++++++|+++||||
T Consensus       196 a~~i~~~---------~--~dv~~V~~lIGER~~EV~d~~~~~~--G-----~VV~atadep~~~r~~~a~~altiAEyf  257 (427)
T 3l0o_A          196 ANGIAEN---------H--PDTIRIILLIDERPEEVTDIRESTN--A-----IVIAAPFDMPPDKQVKVAELTLEMAKRL  257 (427)
T ss_dssp             HHHHHHH---------C--TTSEEEEEECSCCHHHHSSSSSSCC--S-----EEEECCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhc---------C--CCeEEEEEEeccCcchHHHHHHHhC--C-----eEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            9998541         2  3568999999999999999998885  3     8999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEec-CCCcccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDDFKVS  240 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~-~~d~~dp  240 (293)
                      |++ |+|||+++||+||||+|+||+++++||+|+ +||||++|+.++++||||++++ ++||||+|+||+++ +||++||
T Consensus       258 rd~-G~dVLil~DslTR~A~A~rEvs~~~Ge~~s-~Gypp~~~~~~~~~~erA~~ie-~~GSIT~i~tvlvetgdd~~dp  334 (427)
T 3l0o_A          258 VEF-NYDVVILLDSLTRLARVYNIVVPPSGKLLT-GGVDPAALYKPKRFFGAARNTR-EGGSLTIIATALVETGSKMDEV  334 (427)
T ss_dssp             HHT-TCEEEEEEECHHHHHHHHHHHSCCCSCCCS-SSCCSSCSHHHHHHHHTCEEES-SSCEEEEEEEEECSSSCSHHHH
T ss_pred             HHc-CCCEEEecccchHHHHHHHHHHHhcCCCCC-CCcCchhhcchHHHHHhhcccC-CCcceeEEEEEEecCCCCcCCc
Confidence            997 999999999999999999999999999999 5999999999999999999997 69999999999999 7899999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      |+|+             +|+.+++|||||+..|.||.+.
T Consensus       335 I~d~~~~i~dg~IvLsR~La~~giyPAIDvl~S~SR~~~  373 (427)
T 3l0o_A          335 IFEEFKGTGNMELVLSRQLANKRIFPAINLLLSGTRREE  373 (427)
T ss_dssp             HHHHTTTCCSEEEEBCHHHHTTTCSSCBCSTTCEETTGG
T ss_pred             chHHhcccCCceEEEeHHHHhCCCCCccCcccccccccc
Confidence            9996             7899999999999999999764

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=100.00  E-value=4.4e-60  Score=466.95  Aligned_cols=245  Identities=19%  Similarity=0.272  Sum_probs=223.0

Q ss_pred             CcccCCCCCCCCceeEEEec-ceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFL-TKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~-~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      ++..|++.+....+.   .. ........+.||..|.++++++  +||||+||.|+|++||||++|||++|+|||+|+.+
T Consensus        96 ~d~lG~piD~~g~i~---~~~~~~pi~~~~p~~~~r~~~~e~l--~TGir~ID~L~pi~kGq~~~i~G~sGvGKTtL~~~  170 (473)
T 1sky_E           96 FNVLGEPIDLEGDIP---ADARRDPIHRPAPKFEELATEVEIL--ETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQE  170 (473)
T ss_dssp             ECTTSCBCSSSCCCC---TTSCEEESCCCCCCGGGBCCSCCEE--CCSCHHHHHHSCEETTCEEEEECCSSSCHHHHHHH
T ss_pred             EeecCCccCcccccC---CCceeecccccCcchhhhcccCccc--cccchHHHHHhhhccCCEEEEECCCCCCccHHHHH
Confidence            567888887765542   22 2334556677899999999999  99999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+++..+.            ...+|||++||||++++.++.+++.+.++|+|+++|++++++||+.|++++++++++|||
T Consensus       171 l~~~~~~~------------~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEy  238 (473)
T 1sky_E          171 LIHNIAQE------------HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEY  238 (473)
T ss_dssp             HHHHHHHH------------TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhhc------------cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHH
Confidence            99887531            246889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      |++++|+|||+++||+||||+|+||+|+++||||+++||||++|+.|++|||||++.  ++||||+|++|++|+||++||
T Consensus       239 Frd~~G~~VLl~~D~itR~a~A~reis~~~ge~P~~~GYp~~~~~~l~~l~ERa~~~--~~GSIT~i~tv~~~~dD~~dp  316 (473)
T 1sky_E          239 FRDEQGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQERITST--AKGSITSIQAIYVPADDYTDP  316 (473)
T ss_dssp             HHHHSCCEEEEEEECTHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHHHHHHTTSSCB--SSCEEEEEEECCCSTTCSSSH
T ss_pred             HHHhcCCcEEEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHHHHHHHHhcCC--CCCceEEEEEEEecCCCCCCc
Confidence            999449999999999999999999999999999999999999999999999999973  689999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      |||+             +|+.+++|||||+..|.||.+
T Consensus       317 i~~~~~~i~dg~ivLsr~La~~g~yPAId~l~S~SR~~  354 (473)
T 1sky_E          317 APATTFSHLDATTNLERKLAEMGIYPAVDPLVSTSRAL  354 (473)
T ss_dssp             HHHHHHTTCSEEEEBCTTHHHHTCSSCBCTTTCCBTTC
T ss_pred             chHHHHhhcCceEEecHHHHhCCCCCcccccccccccc
Confidence            9985             888999999999999999965

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=100.00  E-value=3.5e-60  Score=458.01  Aligned_cols=219  Identities=16%  Similarity=0.223  Sum_probs=204.1

Q ss_pred             ecccccCCCccccCCC----CccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCC
Q psy5595          25 EKNFVSQEGERSFTPR----DLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSE  100 (293)
Q Consensus        25 ~~~~~~~~p~~r~~p~----e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~  100 (293)
                      +++..+.+|..|..++    +++  +||+|+||+++||++|||++|||++|+|||+|+++|++++.+.           .
T Consensus       136 Fe~ltp~yP~er~~Le~~~~~~~--~tGiraID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~-----------~  202 (422)
T 3ice_A          136 FENLTPLHANSRLRMERGNGSTE--DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-----------H  202 (422)
T ss_dssp             TTTSCEESCCSBCCCCCTTCCTT--HHHHHHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHH-----------C
T ss_pred             eccccccCCCCccccccCCCCcc--cccceeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhc-----------C
Confidence            3556778899999998    788  9999999999999999999999999999999999999988531           2


Q ss_pred             CceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         101 DNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       101 ~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ++..|||++||||++|+++|.+++       ++++|++|+|+||.+|++++++|+++|||||++ |+||||++||+||||
T Consensus       203 ~~v~~I~~lIGER~~Ev~~~~~~~-------~~~vV~atadep~~~r~~~a~~alt~AEyfrd~-G~dVLil~DslTR~A  274 (422)
T 3ice_A          203 PDCVLMVLLIDERPEEVTEMQRLV-------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEH-KKDVIILLDSITRLA  274 (422)
T ss_dssp             TTSEEEEEEESSCHHHHHHHHTTC-------SSEEEEECTTSCHHHHHHHHHHHHHHHHHHHHT-SCEEEEEEECHHHHH
T ss_pred             CCeeEEEEEecCChHHHHHHHHHh-------CeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhc-CCCEEEEEeCchHHH
Confidence            456899999999999999999887       479999999999999999999999999999998 999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEec-CCCcccccccc-------------cc
Q psy5595         181 EALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDDFKVSAARE-------------EV  246 (293)
Q Consensus       181 ~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~-~~d~~dpi~~~-------------~l  246 (293)
                      +|+||+++++||+|+ +|||+++|+.+++|||||++++ ++||||+|+||++| +||++|||+|+             +|
T Consensus       275 ~A~revs~~~Ge~ps-~Gyp~~~~~~~~rl~erA~~~~-~~GSIT~i~tvlv~tgdd~~dpI~d~~~~i~dg~ivLsR~L  352 (422)
T 3ice_A          275 RAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVE-EGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKI  352 (422)
T ss_dssp             HHHHHHSCCSSCBCS-SSCBHHHHHHHHHHHTTCEEES-SSCEEEEEEEECCSSSCHHHHHHHHHHHHHCSEEEEBCHHH
T ss_pred             HHHHHHHHhcCCCCC-CCcCHHHHhhhHHHHHhccccC-CCcceeEEEEEEecCCCcccchHHHHhcccCCceEEEcHHH
Confidence            999999999999999 9999999999999999999986 69999999999999 78899999996             88


Q ss_pred             CCCCCCCCcccccccchhhh
Q psy5595         247 PGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       247 a~~r~~Pai~~~~~~s~~~r  266 (293)
                      +.+++|||||+..|.||.+.
T Consensus       353 a~~giyPAIDvl~S~SR~~~  372 (422)
T 3ice_A          353 AEKRVFPAIDYNRSGTRKEE  372 (422)
T ss_dssp             HHTTCSSCBCTTTCEESSGG
T ss_pred             HhcCCCCccCccccccccch
Confidence            99999999999999999764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=100.00  E-value=3.2e-40  Score=314.47  Aligned_cols=241  Identities=24%  Similarity=0.309  Sum_probs=212.0

Q ss_pred             CcccCCCCCCCC-ceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHH
Q psy5595           2 KAVVGEEALTPD-DLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus         2 ~~~~~~~~~~~~-~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      .+..|++.+... .+...+   .......+.+|..|..+++++  .||+++||.++||++||+++|+|++|+|||||+.+
T Consensus        16 ~~~~g~p~d~~~~~~~~~~---~~~i~~~~~~~i~~~~l~~~~--~tg~~ald~ll~i~~Gq~~gIiG~nGaGKTTLl~~   90 (347)
T 2obl_A           16 IDGIGRPMESNIVAPYLPF---ERSLYAEPPDPLLRQVIDQPF--ILGVRAIDGLLTCGIGQRIGIFAGSGVGKSTLLGM   90 (347)
T ss_dssp             ECTTSCBCSCCSSCCCCCE---EEESCCCCSCSTTCCCCCSEE--CCSCHHHHHHSCEETTCEEEEEECTTSSHHHHHHH
T ss_pred             ECCCCCcCCCCCCCCCCCC---cccccCCCCCCeeecccceec--CCCCEEEEeeeeecCCCEEEEECCCCCCHHHHHHH
Confidence            467899998876 543222   233455666789999999999  89999999999999999999999999999999999


Q ss_pred             HHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHH
Q psy5595          81 ICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEF  160 (293)
Q Consensus        81 I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEy  160 (293)
                      |+++..               .+..++.++|++.+++.++...+.+ +.+++++++++++++|+..|+.+++.++++|||
T Consensus        91 I~g~~~---------------~~~g~i~~~G~~~~ev~~~i~~~~~-~~~~~~v~~~~~~~~~~~~r~~~~~~~~~~ae~  154 (347)
T 2obl_A           91 ICNGAS---------------ADIIVLALIGERGREVNEFLALLPQ-STLSKCVLVVTTSDRPALERMKAAFTATTIAEY  154 (347)
T ss_dssp             HHHHSC---------------CSEEEEEEESCCHHHHHHHHTTSCH-HHHTTEEEEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HhcCCC---------------CCEEEEEEecccHHHHHHHHHhhhh-hhhhceEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            999973               4577889999998888776655333 357899999999999999999999999999999


Q ss_pred             HHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCcccc
Q psy5595         161 LAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVS  240 (293)
Q Consensus       161 fr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dp  240 (293)
                      |+++ |++|++++|++++|+.++|++++++++||.+.|||+++++.+.+++||+++.  ++||||+++||+++++|+++|
T Consensus       155 ~~~~-~~~vl~~ld~~~~lS~g~r~v~lal~~p~~t~Gldp~~~~~l~~ller~~~~--~~GsiT~~~tVl~~thdl~~~  231 (347)
T 2obl_A          155 FRDQ-GKNVLLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGPA--PKGSITAIYTVLLESDNVNDP  231 (347)
T ss_dssp             HHTT-TCEEEEEEETHHHHHHHHHHHHHHTTCCCCBTTBCHHHHHHHHHHHTTCEEC--SSSEEEEEEEEECCSSCCCCH
T ss_pred             HHhc-cccHHHHHhhHHHHHHHHHHHHHHcCCCCcccCCCHHHHHHHHHHHHHHhCC--CCCCeeeEEEEEEeCCCCCCh
Confidence            9997 9999999999999999999999999999999999999999999999999873  479999999999999999999


Q ss_pred             cccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         241 AARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       241 i~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ++|+             .++..++||++|+..|.|+++.
T Consensus       232 i~d~v~~i~dG~Ivl~~~l~~~~~~Paid~~~S~sr~~~  270 (347)
T 2obl_A          232 IGDEVRSILDGHIVLTRELAEENHFPAIDIGLSASRVMH  270 (347)
T ss_dssp             HHHHHHHHCSEEEEBCHHHHTTTCSSCBCGGGCEETTHH
T ss_pred             hhhheEEeeCcEEEEeCCHHHcCCCCCcCcccccccccc
Confidence            9986             5678889999999999999753

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=100.00  E-value=5.7e-35  Score=286.09  Aligned_cols=243  Identities=20%  Similarity=0.232  Sum_probs=205.5

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      +++.|++.+....+..   .........+.++..|..++..+  .||+++||.++||++||+++|+|++|+|||||+.+|
T Consensus       103 ~~~lg~p~d~~~~~~~---~~~~~i~~~~~~~l~~~~v~~~~--~tg~~vld~vl~i~~Gq~~~IvG~sGsGKSTLl~~I  177 (438)
T 2dpy_A          103 LDGGGKPLDGLPAPDT---LETGALITPPFNPLQRTPIEHVL--DTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMM  177 (438)
T ss_dssp             ECTTCCBSSSSCCCCC---SCEEESCCCCCCTTTSCCCCSBC--CCSCHHHHHHSCCBTTCEEEEEECTTSSHHHHHHHH
T ss_pred             hhccCCccCCCCCccc---cccccccCCCCCceEEeccceec--CCCceEEeeeEEecCCCEEEEECCCCCCHHHHHHHH
Confidence            4567777644333211   11111222344578888888888  889999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..               .+..++.++|+|.+++.++.+.+.+.+.+++++.+++++++++..++.+++.+++.||||
T Consensus       178 ag~~~---------------~~~G~i~~~G~r~~ev~~~~~~~~~~~~l~r~i~~v~q~~~~~~~~~~v~~~~~~~ae~~  242 (438)
T 2dpy_A          178 ARYTR---------------ADVIVVGLIGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDF  242 (438)
T ss_dssp             HHHSC---------------CSEEEEEEESCCHHHHHHHHHTTTHHHHHHTEEEEEECTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             hcccC---------------CCeEEEEEeceecHHHHHHHHhhccccccCceEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            99973               356788899999988888876655445577899999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCCccccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDDFKVSA  241 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d~~dpi  241 (293)
                      +++ +++|+.++|++++|+.+++++++++++||...|||++.++.+.+++||+++.++++||||+++||++.++|+++|+
T Consensus       243 ~~~-~~~v~~~ld~l~~lS~g~qrvslAl~~p~~t~glD~~~~~~l~~ll~r~~~~~~~~GsiT~~~tVlv~tHdl~~~i  321 (438)
T 2dpy_A          243 RDR-GQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGIHGGGSITAFYTVLTEGDDQQDPI  321 (438)
T ss_dssp             HTT-TCEEEEEEECHHHHHHHHHHHHHHTTCCCCSSSCCTTHHHHHHHHHTTCSCCSTTSCEEEEEEEEECSSSCSCCHH
T ss_pred             HhC-CCCHHHHHHhHHHHHHHHHHHHHHhCCCcccccCCHHHHHHHHHHHHHHHhccCCCCcccceeEEEEeCCCccchh
Confidence            986 8999999999999999999999999999999999999999999999999874213599999999999999999999


Q ss_pred             ccc-------------ccCCCCCCCCcccccccchhh
Q psy5595         242 ARE-------------EVPGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       242 ~~~-------------~la~~r~~Pai~~~~~~s~~~  265 (293)
                      +|+             .++..++||++|+..+.+++.
T Consensus       322 ad~v~~l~dG~Ivl~~~~~~~~~~Paidv~~s~sR~~  358 (438)
T 2dpy_A          322 ADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAM  358 (438)
T ss_dssp             HHHHHHHSSEEEEECHHHHHTTCSSCEEEEEEEETTH
T ss_pred             hceEEEEeCcEEEEeCCHHHccCCCCcCCcccccccc
Confidence            986             556778999999999998864

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=98.04  E-value=2.5e-05  Score=67.72  Aligned_cols=65  Identities=17%  Similarity=0.189  Sum_probs=49.8

Q ss_pred             CCCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          39 PRDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        39 p~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      |-+.+  .||+..+|-++.  +-+|+-+.|.|+||+|||+|+.+++.++.+.            .+..++|....+..+.
T Consensus         8 ~i~ri--~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~------------~~~~v~~~s~E~~~~~   73 (251)
T 2zts_A            8 PVRRV--KSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEE------------YGEPGVFVTLEERARD   73 (251)
T ss_dssp             CCCEE--CCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHH------------HCCCEEEEESSSCHHH
T ss_pred             CCCee--cCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh------------cCCCceeecccCCHHH
Confidence            44457  899999999997  8899999999999999999999988765321            1234667666665544


Q ss_pred             H
Q psy5595         117 A  117 (293)
Q Consensus       117 ~  117 (293)
                      .
T Consensus        74 ~   74 (251)
T 2zts_A           74 L   74 (251)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.95  E-value=2.4e-05  Score=67.77  Aligned_cols=43  Identities=16%  Similarity=0.284  Sum_probs=39.1

Q ss_pred             CccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          41 DLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        41 e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+  .||+..+|-++  -+.+|+-++|.|++|+|||+|+.+|+.++
T Consensus         4 ~~i--~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A            4 IQI--TTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             CEE--CCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEe--cCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            345  89999999998  58899999999999999999999999875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.95  E-value=2.6e-05  Score=66.68  Aligned_cols=41  Identities=17%  Similarity=0.190  Sum_probs=37.8

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||++.+|-++.  +.+|+-++|.|++|+|||+|+.+|+....
T Consensus         6 ~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A            6 STGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             CCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            799999999985  89999999999999999999999997653

>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=97.89  E-value=1.5e-05  Score=75.32  Aligned_cols=108  Identities=10%  Similarity=0.170  Sum_probs=69.0

Q ss_pred             CCCceeeeeccc------ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHH
Q psy5595          46 SSGKRAIDVMNS------IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARF  119 (293)
Q Consensus        46 ~TGiraID~l~p------igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~  119 (293)
                      .||+..+|.++-      +-+| .+.|+|+||+|||+|+.+++.++.+.           ..+..|+|+-.-+..+.. .
T Consensus         8 sTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~-----------g~g~~vlyId~E~s~~~~-r   74 (333)
T 3io5_A            8 RTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQ-----------YPDAVCLFYDSEFGITPA-Y   74 (333)
T ss_dssp             CCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHH-----------CTTCEEEEEESSCCCCHH-H
T ss_pred             cCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhc-----------CCCceEEEEeccchhhHH-H
Confidence            799999999998      8899 99999999999999999998887531           013578886544433221 1


Q ss_pred             HHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHH--HHhcCCceEEEecchhHHH
Q psy5595         120 FKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFL--AYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       120 ~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf--r~~~G~~VLli~Dsltr~a  180 (293)
                       .+.+   |+ .++ ++++. .+.  .++.     ++.+++.+  ... ++-.|||+||++-+.
T Consensus        75 -a~~l---Gvd~d~-llv~~-~~~--~E~~-----~l~i~~~l~~i~~-~~~~lvVIDSI~aL~  124 (333)
T 3io5_A           75 -LRSM---GVDPER-VIHTP-VQS--LEQL-----RIDMVNQLDAIER-GEKVVVFIDSLGNLA  124 (333)
T ss_dssp             -HHHT---TCCGGG-EEEEE-CSB--HHHH-----HHHHHHHHHTCCT-TCCEEEEEECSTTCB
T ss_pred             -HHHh---CCCHHH-eEEEc-CCC--HHHH-----HHHHHHHHHHhhc-cCceEEEEecccccc
Confidence             1222   32 233 33332 222  2332     13334443  233 678999999998764

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.89  E-value=2.2e-05  Score=74.77  Aligned_cols=109  Identities=17%  Similarity=0.269  Sum_probs=69.3

Q ss_pred             CccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          41 DLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        41 e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      +.+  .||+..+|-++.   +.+|.-+.|+|++|+|||+|+.+++.++.+             ....++|+..-+..+..
T Consensus        40 ~~i--~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~-------------~gg~VlyId~E~s~~~~  104 (356)
T 3hr8_A           40 EVI--PTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK-------------MGGVAAFIDAEHALDPV  104 (356)
T ss_dssp             CEE--CCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH-------------TTCCEEEEESSCCCCHH
T ss_pred             cee--cCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh-------------cCCeEEEEecccccchH
Confidence            456  899999999988   779999999999999999999999988753             12345665433222221


Q ss_pred             HHHHHhhhhCCcc-ccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         118 RFFKQDFEENGSM-ENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       118 ~~~~~~l~~~g~~-~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                        ..+.+   |+. ++ ..+.. .+.        ....+.+++.+... ++.-++|+|+++.+.
T Consensus       105 --ra~rl---gv~~~~-l~i~~-~~~--------~e~~l~~~~~l~~~-~~~dlvVIDSi~~l~  152 (356)
T 3hr8_A          105 --YAKNL---GVDLKS-LLISQ-PDH--------GEQALEIVDELVRS-GVVDLIVVDSVAALV  152 (356)
T ss_dssp             --HHHHH---TCCGGG-CEEEC-CSS--------HHHHHHHHHHHHHT-SCCSEEEEECTTTCC
T ss_pred             --HHHHc---CCchhh-hhhhh-ccC--------HHHHHHHHHHHhhh-cCCCeEEehHhhhhc
Confidence              22222   211 22 22222 111        22334556666555 566788999998765

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.88  E-value=2.6e-05  Score=73.70  Aligned_cols=109  Identities=17%  Similarity=0.314  Sum_probs=70.3

Q ss_pred             CccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          41 DLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        41 e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      +.+  .||+..+|-++.   +-+|.-++|.|++|+|||+|+.+++.++.+.             +..++|+-..+..+..
T Consensus        40 ~~i--~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~-------------g~~vlyi~~E~~~~~~  104 (349)
T 2zr9_A           40 SVI--PTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA-------------GGIAAFIDAEHALDPE  104 (349)
T ss_dssp             CEE--CCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-------------TCCEEEEESSCCCCHH
T ss_pred             Ccc--ccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhC-------------CCeEEEEECCCCcCHH
Confidence            456  899999999987   5699999999999999999999999887531             2346666554433321


Q ss_pred             HHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         118 RFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       118 ~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                        ..+.+   |+ .++ +.+.. .+  ..++      .+.+++.+..+ ++.-+||+|+++.+.
T Consensus       105 --~a~~l---G~~~~~-l~i~~-~~--~~e~------~l~~~~~l~~~-~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          105 --YAKKL---GVDTDS-LLVSQ-PD--TGEQ------ALEIADMLVRS-GALDIIVIDSVAALV  152 (349)
T ss_dssp             --HHHHT---TCCGGG-CEEEC-CS--SHHH------HHHHHHHHHTT-TCCSEEEEECGGGCC
T ss_pred             --HHHHc---CCCHHH-eEEec-CC--CHHH------HHHHHHHHHhc-CCCCEEEEcChHhhc
Confidence              11222   22 122 22222 11  1222      34456666555 567799999999765

>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=97.86  E-value=2.8e-05  Score=66.29  Aligned_cols=38  Identities=18%  Similarity=0.282  Sum_probs=36.4

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .||+..+|-++.  +.+|+-++|.|++|+|||+|+.+|+.
T Consensus         3 ~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A            3 STGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             CCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            799999999996  99999999999999999999999988

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.85  E-value=3.6e-05  Score=73.12  Aligned_cols=110  Identities=16%  Similarity=0.269  Sum_probs=70.4

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||+..+|-++.   +-+|+-+.|.|++|+|||+|+.+++.++.+.             +..++|+-.-+..+.
T Consensus        41 ~~~i--~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~-------------g~~vlyid~E~s~~~  105 (356)
T 1u94_A           41 VETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE-------------GKTCAFIDAEHALDP  105 (356)
T ss_dssp             CCEE--CCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHT-------------TCCEEEEESSCCCCH
T ss_pred             CCcc--cCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHC-------------CCeEEEEeCCCCccH
Confidence            3456  899999999987   7799999999999999999999999887531             224556554333222


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      .  ..+.+   |+ .++ ..+. ..+  ..+      ..+.+++.+... ++.-+||+|+++.+.
T Consensus       106 ~--~a~~~---g~~~~~-l~i~-~~~--~~e------~~~~~~~~l~~~-~~~~lVVIDsl~~l~  154 (356)
T 1u94_A          106 I--YARKL---GVDIDN-LLCS-QPD--TGE------QALEICDALARS-GAVDVIVVDSVAALT  154 (356)
T ss_dssp             H--HHHHT---TCCGGG-CEEE-CCS--SHH------HHHHHHHHHHHH-TCCSEEEEECGGGCC
T ss_pred             H--HHHHc---CCChhh-eeee-CCC--CHH------HHHHHHHHHHhc-cCCCEEEEcCHHHhc
Confidence            1  11222   21 122 2222 221  122      234556666655 566789999998765

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.84  E-value=4.3e-05  Score=65.52  Aligned_cols=40  Identities=18%  Similarity=0.321  Sum_probs=36.9

Q ss_pred             CCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          46 SSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        46 ~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .||+..+|-++  -+.+|+.++|+|++|+|||||+.+|+...
T Consensus         8 ~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A            8 STGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             CCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            79999999877  68899999999999999999999998865

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.81  E-value=6.8e-05  Score=69.51  Aligned_cols=127  Identities=16%  Similarity=0.174  Sum_probs=73.2

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--ch
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--ME  115 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e  115 (293)
                      .+.+  .||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.++.+..    .   +...+..++|+..-+.  .+
T Consensus        86 ~~~i--~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~----~---~gg~~~~vlyi~~e~~~~~~  156 (324)
T 2z43_A           86 VKKI--STGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPP----E---KGGLSGKAVYIDTEGTFRWE  156 (324)
T ss_dssp             CCEE--CCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCG----G---GTCCSCEEEEEESSSCCCHH
T ss_pred             CCcc--cCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhccc----c---cCCCCCeEEEEECCCCCCHH
Confidence            3456  89999999998  588999999999999999999999998864310    0   0001335677655543  34


Q ss_pred             hHHHHHHhhhh--CCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         116 TARFFKQDFEE--NGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       116 ~~~~~~~~l~~--~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                      ....+.+.+.-  ..++++ +.+....+   .++..   ..+..++.+..+..+--+||+|+++.+..+
T Consensus       157 ~l~~~~~~~g~~~~~~~~~-l~~~~~~~---~~~~~---~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~  218 (324)
T 2z43_A          157 RIENMAKALGLDIDNVMNN-IYYIRAIN---TDHQI---AIVDDLQELVSKDPSIKLIVVDSVTSHFRA  218 (324)
T ss_dssp             HHHHHHHHTTCCHHHHHHT-EEEEECCS---HHHHH---HHHHHHHHHHHHCTTEEEEEETTTTHHHHH
T ss_pred             HHHHHHHHhCCCHHHHhcc-EEEEeCCC---HHHHH---HHHHHHHHHHHhccCCCEEEEeCcHHHhhh
Confidence            44333322210  001123 23332221   12211   122233333322145679999999998764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.78  E-value=4e-05  Score=86.66  Aligned_cols=112  Identities=15%  Similarity=0.264  Sum_probs=75.5

Q ss_pred             CCCCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc
Q psy5595          38 TPRDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM  114 (293)
Q Consensus        38 ~p~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~  114 (293)
                      ...+.+  .||+..+|.++.   +-+|..++|+||||+|||+|+.+++.++.+             .+..|+|...-+..
T Consensus      1403 ~~~~~i--sTG~~~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~-------------~G~~v~Fi~~e~~~ 1467 (2050)
T 3cmu_A         1403 MDVETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-------------EGKTCAFIDAEHAL 1467 (2050)
T ss_dssp             TSCCEE--CCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT-------------TTCCEEEECTTSCC
T ss_pred             cccccc--cCCCHHHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCcEEEEEccccc
Confidence            345567  899999999999   889999999999999999999999998864             23456676655442


Q ss_pred             hhHHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         115 ETARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       115 e~~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ....  .+.+   |+ ++.  +.+.+.+.  .+      .++.+.+++..+ ++--+||+|++.-|.
T Consensus      1468 ~~l~--a~~~---G~dl~~--l~v~~~~~--~E------~~l~~~~~lvr~-~~~~lVVIDsi~al~ 1518 (2050)
T 3cmu_A         1468 DPIY--ARKL---GVDIDN--LLCSQPDT--GE------QALEICDALARS-GAVDVIVVDSVAALT 1518 (2050)
T ss_dssp             CHHH--HHHT---TCCTTT--CEEECCSS--HH------HHHHHHHHHHHH-TCCSEEEESCGGGCC
T ss_pred             CHHH--HHHc---CCCchh--ceeecCCh--HH------HHHHHHHHHHhc-CCCCEEEEcChhHhc
Confidence            2211  1222   21 122  22334332  22      455667777666 778899999996443

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.76  E-value=4.2e-05  Score=72.95  Aligned_cols=110  Identities=18%  Similarity=0.273  Sum_probs=71.3

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||+..+|.++.   +-+|.-+.|.|++|+|||+|+.+++.++.+.             +..++|+-.-...+.
T Consensus        52 ~~~i--~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~-------------g~~vlyi~~E~s~~~  116 (366)
T 1xp8_A           52 VQVV--STGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA-------------GGTCAFIDAEHALDP  116 (366)
T ss_dssp             CCEE--CCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-------------TCCEEEEESSCCCCH
T ss_pred             Ccee--cCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHC-------------CCeEEEEECCCChhH
Confidence            3456  899999999987   6799999999999999999999999887531             234666665544333


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      .  +.+.+   |+ .++ +++. ..+.  .+      ..+.+.+.+... +..-+||+|+++.+.
T Consensus       117 ~--~a~~~---g~d~~~-l~i~-~~~~--~e------~~l~~l~~l~~~-~~~~lVVIDsl~~l~  165 (366)
T 1xp8_A          117 V--YARAL---GVNTDE-LLVS-QPDN--GE------QALEIMELLVRS-GAIDVVVVDSVAALT  165 (366)
T ss_dssp             H--HHHHT---TCCGGG-CEEE-CCSS--HH------HHHHHHHHHHTT-TCCSEEEEECTTTCC
T ss_pred             H--HHHHc---CCCHHH-ceee-cCCc--HH------HHHHHHHHHHhc-CCCCEEEEeChHHhc
Confidence            2  11222   22 122 2222 2221  22      234556666655 566789999998764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.70  E-value=9.7e-05  Score=83.56  Aligned_cols=109  Identities=15%  Similarity=0.236  Sum_probs=80.0

Q ss_pred             CCccccCCCceeeeecc---cccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMN---SIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~---pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .|||..+|-++   -+-+|+.++|+|++|+|||+|+.+++.++.+             .+..|+|+-.-+..++
T Consensus      1059 ~~~i--~TGi~~Ld~~lg~ggi~~g~~vll~G~~GtGKT~la~~~~~ea~k-------------~Ge~~~Fit~ee~~~~ 1123 (2050)
T 3cmu_A         1059 VETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-------------EGKTCAFIDAEHALDP 1123 (2050)
T ss_dssp             CCEE--CCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT-------------TTCCEEEECTTSCCCH
T ss_pred             cccc--cCCcHHHHHHhccCCcCCCcEEEEECCCCCCHHHHHHHHHHHHHH-------------cCCeEEEEEccccHHH
Confidence            4456  79999999988   4889999999999999999999999998865             2457889988887666


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY  179 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~  179 (293)
                      ...  .   ..|. +++-. +. ..+        ....+..+.+.++.. ++--+||+||++.+
T Consensus      1124 L~a--~---~~G~dl~~l~-~~-~pd--------~~e~~~~i~~~l~~~-~~~dlvVIDsl~~L 1171 (2050)
T 3cmu_A         1124 IYA--R---KLGVDIDNLL-CS-QPD--------TGEQALEICDALARS-GAVDVIVVDSVAAL 1171 (2050)
T ss_dssp             HHH--H---HTTCCTTTCE-EE-CCS--------SHHHHHHHHHHHHHH-TCCSEEEESCGGGC
T ss_pred             HHH--H---HcCCChhHhe-ee-cCc--------chHHHHHHHHHHHHh-CCCCEEEECCcccc
Confidence            551  1   1121 12212 22 222        124567778888876 78889999999887

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.61  E-value=8e-05  Score=83.18  Aligned_cols=115  Identities=13%  Similarity=0.202  Sum_probs=77.1

Q ss_pred             CCCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch
Q psy5595          39 PRDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME  115 (293)
Q Consensus        39 p~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e  115 (293)
                      ..+.+  .||+..+|-++.   +-+|+.++|+|+||+|||+|+.+++.++.+             .+..|+|+...+..+
T Consensus        11 ~~~~i--sTGi~~LD~lL~~GGi~~G~i~lI~G~pGsGKT~LAlqla~~~~~-------------~G~~vlYI~te~~~~   75 (1706)
T 3cmw_A           11 DVETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-------------EGKTCAFIDAEHALD   75 (1706)
T ss_dssp             -CCEE--CCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-------------TTCCEEEECTTSCCC
T ss_pred             cCccc--ccCcHHHHHHhhcCCcCCCeEEEEECCCCCCHHHHHHHHHHHHhh-------------CCCceEEEEecCccH
Confidence            34556  899999999975   889999999999999999999999988753             134688888877654


Q ss_pred             hHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH
Q psy5595         116 TARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL  183 (293)
Q Consensus       116 ~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~  183 (293)
                      +..  .+.+. .. +++.. +... +  ..      .....+.+.+... ++.-+||+||++.+....
T Consensus        76 ~l~--~~~lg-~d-l~~i~-i~~p-~--t~------e~l~~ll~~L~~~-~~~~LVVIDSLt~L~~~~  128 (1706)
T 3cmw_A           76 PIY--ARKLG-VD-IDNLL-CSQP-D--TG------EQALEICDALARS-GAVDVIVVDSVAALTPKA  128 (1706)
T ss_dssp             HHH--HHHTT-CC-GGGCE-EECC-S--SH------HHHHHHHHHHHHH-TCCSEEEESCSTTCCCHH
T ss_pred             HHH--HHhhc-cC-cccee-eecc-C--cH------HHHHHHHHHHHhc-cCCCEEEEcchhhhcccc
Confidence            433  12221 11 22222 2222 1  12      2234455666665 677899999999887643

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.58  E-value=0.0003  Score=65.85  Aligned_cols=45  Identities=16%  Similarity=0.208  Sum_probs=40.2

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+  .||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.++.
T Consensus       101 ~~~i--~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~  147 (343)
T 1v5w_A          101 VFHI--TTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ  147 (343)
T ss_dssp             CCCB--CCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             ccee--ecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3456  89999999998  588999999999999999999999999864

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=97.56  E-value=0.00021  Score=65.64  Aligned_cols=45  Identities=13%  Similarity=0.121  Sum_probs=40.0

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+  .||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.++.
T Consensus        77 ~~~i--~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~  123 (322)
T 2i1q_A           77 VWKL--STSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ  123 (322)
T ss_dssp             CCEE--CCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCee--cCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4456  89999999998  578999999999999999999999998753

>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=97.54  E-value=2.3e-05  Score=65.63  Aligned_cols=30  Identities=10%  Similarity=0.230  Sum_probs=26.6

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|+.++|+|++|+|||||+..|++...
T Consensus        34 ~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           34 NPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             CGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356799999999999999999999998873

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.45  E-value=0.00011  Score=63.59  Aligned_cols=41  Identities=12%  Similarity=0.145  Sum_probs=37.2

Q ss_pred             CCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||++.+|-++  -+-+|+-++|.|++|+|||+|+.+++.+..
T Consensus         6 ~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~   48 (247)
T 2dr3_A            6 KTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGL   48 (247)
T ss_dssp             CCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999986  477999999999999999999999988764

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.44  E-value=0.00034  Score=65.81  Aligned_cols=45  Identities=18%  Similarity=0.274  Sum_probs=39.8

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+  .||+..+|-++  -+-+|+-++|+|++|+|||+|+.+++....
T Consensus       110 ~~~i--sTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A          110 IGRI--STGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             CCEE--CCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCee--cCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4456  89999999985  577999999999999999999999998863

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.42  E-value=0.00091  Score=61.75  Aligned_cols=45  Identities=16%  Similarity=0.152  Sum_probs=39.7

Q ss_pred             CccccCCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          41 DLIGDSSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        41 e~l~~~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.+  .||+..+|-++- +-+|+-++|.|+||+|||+|+.+++.++++
T Consensus        49 ~~i--~TG~~~LD~~lgGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~   94 (315)
T 3bh0_A           49 TGV--PSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSD   94 (315)
T ss_dssp             CSB--CCSCHHHHHHHSSBCTTCEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCc--cCChHHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            345  899999998874 779999999999999999999999988753

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.40  E-value=0.00013  Score=60.51  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=25.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|+.++|+|++|+|||+|+..|++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~   61 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL   61 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            899999999999999999999998773

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=97.36  E-value=0.00042  Score=66.80  Aligned_cols=45  Identities=9%  Similarity=0.239  Sum_probs=39.7

Q ss_pred             CCccccCCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          40 RDLIGDSSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+  .||+..+|-++  -|-+|+-+.|+|++|+|||+|+.+++....
T Consensus       157 ~~~i--~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~  203 (400)
T 3lda_A          157 LICL--TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQ  203 (400)
T ss_dssp             SCEE--CCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCcc--ccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhc
Confidence            3456  89999999998  688999999999999999999999886653

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=97.26  E-value=0.00011  Score=66.03  Aligned_cols=52  Identities=13%  Similarity=0.208  Sum_probs=44.6

Q ss_pred             CccccCCCCccccCCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          33 GERSFTPRDLIGDSSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        33 p~~r~~p~e~l~~~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ||......+.+  .||+.-+|-++. +-+|+-++|.|++|+|||||+.+|+....
T Consensus         3 ~~~~~~~~~~i--~tg~~~ld~~lggl~~G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A            3 THKPINILEAF--AAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             CCCCCCHHHHH--HSCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cceecCHHHHh--cCCCCChheeECCccCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            67777777778  899999987764 55999999999999999999999997654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.19  E-value=0.00084  Score=61.49  Aligned_cols=101  Identities=6%  Similarity=0.044  Sum_probs=55.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh---HHHHHHhhhhCCccccEEE
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET---ARFFKQDFEENGSMENVCL  135 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~---~~~~~~~l~~~g~~~~tvv  135 (293)
                      +.++.++|.|++|+|||+|+..+++......       ........++++-+......   ...+.+.+...        
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~-------~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~--------  106 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARA-------SSLGVLVKPIYVNARHRETPYRVASAIAEAVGVR--------  106 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHH-------HHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCC--------
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHH-------hccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCC--------
Confidence            6788999999999999999999998763200       00001345666666554322   23333333110        


Q ss_pred             EeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHH
Q psy5595         136 FLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEA  182 (293)
Q Consensus       136 v~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A  182 (293)
                       ......+.. .     .--.+.+++... ++.++|++|++-++...
T Consensus       107 -~~~~~~~~~-~-----~~~~l~~~l~~~-~~~~vlilDEi~~l~~~  145 (387)
T 2v1u_A          107 -VPFTGLSVG-E-----VYERLVKRLSRL-RGIYIIVLDEIDFLPKR  145 (387)
T ss_dssp             -CCSSCCCHH-H-----HHHHHHHHHTTS-CSEEEEEEETTTHHHHS
T ss_pred             -CCCCCCCHH-H-----HHHHHHHHHhcc-CCeEEEEEccHhhhccc
Confidence             000111111 1     111222334333 77899999999888654

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=97.18  E-value=7.7e-05  Score=74.92  Aligned_cols=62  Identities=32%  Similarity=0.552  Sum_probs=51.6

Q ss_pred             EEEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccc---cCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVE---GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~---~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++-.||++-..-        -+++|.+++||++.++++.++|||+|++.   .+.||+|++++|++|+||-
T Consensus       319 dVLl~~Ds~tR~A~A~rEis~~lge~P~~~GYp~~l~s~l~~l~ERAg~~~~~~~~~GSIT~i~~v~~~gdD~  391 (578)
T 3gqb_A          319 SVALMADSTSRWAEALREISSRLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDM  391 (578)
T ss_dssp             EEEECCSCHHHHHHHHHHHHHHTTCCCCSSSSCTTHHHHHHHHHTTCEEEECTTSCEEEEEEEEECCCTTTCT
T ss_pred             CEEEEecChHHHHHHHHHHHHhccCCCccccCCchhhhHHHHHHHhhcCcccCCCCCcceEEEEEEEcCCCCC
Confidence            35566777764322        24899999999999999999999999987   5899999999999998874

>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=97.15  E-value=0.002  Score=59.23  Aligned_cols=28  Identities=4%  Similarity=0.065  Sum_probs=24.4

Q ss_pred             cCCc--eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQ--KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQ--r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++  .++|.|++|+|||+|+..+++...
T Consensus        40 ~~~~~~~~li~G~~G~GKTtl~~~l~~~~~   69 (389)
T 1fnn_A           40 PGHHYPRATLLGRPGTGKTVTLRKLWELYK   69 (389)
T ss_dssp             TTSSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            3446  899999999999999999998874

>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=97.14  E-value=7.7e-05  Score=75.24  Aligned_cols=61  Identities=38%  Similarity=0.569  Sum_probs=49.8

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++-.||++-..-        -+++|.+++||++.++++.++|||+|++.     .+.||+|++++|++|+||-
T Consensus       331 VLl~~Ds~tR~A~A~rEiS~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~  404 (600)
T 3vr4_A          331 VAIMADSTSRWAEALREMSGRLEEMPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDI  404 (600)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHTTCCBCGGGCBTTHHHHHHHHHTTSEEEECSSTTCCEEEEEEEEEECCSSSCT
T ss_pred             EEEEecchHHHHHHHHHHHhccCCCCccccCCchhhhHHHHHHHhhccccccCCCCCCcceEEEEEEECCCCCC
Confidence            3444566663322        24889999999999999999999999986     5799999999999999884

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.09  E-value=0.00093  Score=74.72  Aligned_cols=110  Identities=15%  Similarity=0.258  Sum_probs=73.3

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      .+.+  .||+..+|-++.   +-+|.-+.|.|+||+|||+|+.+++.++.+             .+..|+|+-.-+..+.
T Consensus       361 ~~~i--sTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~-------------~G~~vlyis~E~s~~~  425 (1706)
T 3cmw_A          361 VETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-------------EGKTCAFIDAEHALDP  425 (1706)
T ss_dssp             CCEE--CCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-------------TTCCEEEECTTSCCCH
T ss_pred             Ccee--ccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHH-------------hCCCeEEEEccCchHH
Confidence            3456  899999999987   779999999999999999999999998864             1335777766555444


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ..  .+.   .|+ .++ ..+ ...+.  .++      .+.+++.+..+ ++--+||+|+++-+.
T Consensus       426 ~~--a~~---lGvd~~~-L~i-~~~~~--~e~------~l~~l~~lv~~-~~~~lVVIDSL~al~  474 (1706)
T 3cmw_A          426 IY--ARK---LGVDIDN-LLC-SQPDT--GEQ------ALEICDALARS-GAVDVIVVDSVAALT  474 (1706)
T ss_dssp             HH--HHH---TTCCGGG-CEE-ECCSS--HHH------HHHHHHHHHHH-TCCSEEEESCSTTCC
T ss_pred             HH--HHH---cCCCHHH-eEE-cCCCC--HHH------HHHHHHHHHHh-cCCCEEEECCHHHhh
Confidence            31  122   232 223 222 22221  333      33455666655 566789999998654

>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=97.08  E-value=0.0012  Score=60.24  Aligned_cols=28  Identities=11%  Similarity=0.204  Sum_probs=25.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++.++|.|++|+|||+|+..+++...
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~   70 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLH   70 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            5688999999999999999999998763

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=97.05  E-value=0.0021  Score=59.66  Aligned_cols=101  Identities=10%  Similarity=0.111  Sum_probs=54.0

Q ss_pred             CCceeeE--ecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEe
Q psy5595          60 RGQKIPI--FSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFL  137 (293)
Q Consensus        60 rGQr~~I--~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~  137 (293)
                      .++.+.|  .|++|+|||+|+..++++.....       .....+..++|+-+.+.......+..-+..-+.   .   .
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~---~---~  115 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAA-------AKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGY---P---I  115 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHH-------HHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTC---C---C
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHH-------hccCCceeEEEEECCCCCCHHHHHHHHHHHhCC---C---C
Confidence            5667888  89999999999999998763200       000013456777765443222222221211110   0   0


Q ss_pred             eCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         138 NLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       138 stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      .....+.      ....-.+.+++... ++.++|++||+-.+.
T Consensus       116 ~~~~~~~------~~~~~~l~~~l~~~-~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          116 QVRGAPA------LDILKALVDNLYVE-NHYLLVILDEFQSML  151 (412)
T ss_dssp             CCTTCCH------HHHHHHHHHHHHHH-TCEEEEEEESTHHHH
T ss_pred             CCCCCCH------HHHHHHHHHHHHhc-CCeEEEEEeCHHHHh
Confidence            0001111      11122334455555 789999999998765

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=97.03  E-value=0.0001  Score=74.06  Aligned_cols=61  Identities=38%  Similarity=0.590  Sum_probs=42.0

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccc-----cCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVE-----GRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~-----~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++-.||++-..-.        +++|.+++||++.++++.++|||+|++.     .+.||+|.++++++|+||-
T Consensus       326 VLl~~DsltR~A~A~rEis~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~  399 (588)
T 3mfy_A          326 VALMADSTSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDF  399 (588)
T ss_dssp             EEEEEECTTTCCCCC----------------CCHHHHHHHHHHTTCEEEECSSSSCCEEEEEEEEECCCTTSCS
T ss_pred             EEEeecchHHHHHHHHHHHHhccCCCccccCCchhhhhhhHHHhccccccccCCCCCCcceEEEEEEECCCCCC
Confidence            44445676643322        4888999999999999999999999986     5789999999999998874

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.97  E-value=0.0025  Score=61.71  Aligned_cols=41  Identities=17%  Similarity=0.289  Sum_probs=37.8

Q ss_pred             CCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++ -+-+|+-+.|.|+||+|||+|+.+|+.++.
T Consensus       187 ~tG~~~LD~~~gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          187 PTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             CCSCHHHHHHHSSBCTTCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHhhcCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999887 377999999999999999999999999875

>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=96.94  E-value=0.0008  Score=61.43  Aligned_cols=27  Identities=15%  Similarity=0.147  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.|++|+|||+|+..|++...
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~   62 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAK   62 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            567899999999999999999999873

>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=96.90  E-value=0.00024  Score=69.97  Aligned_cols=61  Identities=62%  Similarity=1.001  Sum_probs=50.8

Q ss_pred             EEecCCCccccc--------cccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSA--------AREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi--------~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..        .-++.|.+++||++.++.+..+|||+|++..+.||+|.++++.+++||-
T Consensus       251 VLl~~DsltR~A~A~rEis~~lge~P~~~Gyp~~l~~~l~~l~ERAg~~~~~~GSIT~i~~v~~~~dD~  319 (469)
T 2c61_A          251 VLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAKGSVTQIPILSMPGDDI  319 (469)
T ss_dssp             EEEEEECHHHHHHHHTTSGGGTTCCTTSTTCCTHHHHHHHHHHTSCEEBTTSSCEEEEEEEEECCSCTT
T ss_pred             EEEEEeCHHHHHHHHHHHHHhcCCCCcccCcCchhhhhhhhHHhhccccCCCCCceeeeeeeecCCCCc
Confidence            444456666442        2248899999999999999999999999988899999999999999983

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.88  E-value=0.0024  Score=61.61  Aligned_cols=41  Identities=17%  Similarity=0.266  Sum_probs=37.8

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++- +-+|+-+.|.|+||+|||+|+.+|+.++.
T Consensus       184 ~tG~~~LD~~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~a  225 (444)
T 2q6t_A          184 RTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAA  225 (444)
T ss_dssp             CCSCHHHHHHHCCCCTTCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCHhhhhhcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            899999998874 77999999999999999999999999885

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.88  E-value=0.0018  Score=52.53  Aligned_cols=28  Identities=7%  Similarity=0.141  Sum_probs=24.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+..++|.|++|+|||+|+..++++..
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            5567899999999999999999998864

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.87  E-value=0.00054  Score=57.28  Aligned_cols=30  Identities=17%  Similarity=0.195  Sum_probs=25.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.++.+|+.++|+|++|+|||||+..|+..
T Consensus         3 m~~i~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            3 MTDDLGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             ---CCTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             ccCCCCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            567889999999999999999999999765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.81  E-value=0.0077  Score=56.76  Aligned_cols=42  Identities=14%  Similarity=0.157  Sum_probs=38.5

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .||+..+|-++- +-+|+=++|.|+||+|||+|+.+|+.++..
T Consensus        30 ~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~   72 (338)
T 4a1f_A           30 PTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLSALN   72 (338)
T ss_dssp             CCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             cCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            899999998874 889999999999999999999999998853

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.80  E-value=0.0041  Score=55.26  Aligned_cols=28  Identities=11%  Similarity=0.254  Sum_probs=24.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+..++|.|++|+|||+|+..|++..+
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~~   76 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATETN   76 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            4567799999999999999999998874

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.73  E-value=0.00095  Score=56.87  Aligned_cols=41  Identities=12%  Similarity=0.212  Sum_probs=25.4

Q ss_pred             CCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++--..+.+.+..+|+.++|.|++|+|||||+..|+...+
T Consensus        14 ~~~~~~~~~~m~~~~g~~i~l~G~~GsGKSTl~~~L~~~~g   54 (200)
T 4eun_A           14 GTENLYFQSMMTGEPTRHVVVMGVSGSGKTTIAHGVADETG   54 (200)
T ss_dssp             --------------CCCEEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CchhhHHHhhhcCCCCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            45556677778888999999999999999999999988765

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=96.73  E-value=0.00028  Score=69.40  Aligned_cols=61  Identities=61%  Similarity=1.029  Sum_probs=51.4

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-        -++.|.+++||.+.++.+..+|||+|++..+.||+|.+++|.+++||-
T Consensus       250 VLl~~DslTr~A~A~REisl~lge~P~~~GYp~~vf~~l~~l~ERAg~~~~~~GSIT~i~tv~~~~dD~  318 (465)
T 3vr4_D          250 VLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGLKGSVTQIPILTMPEDDK  318 (465)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHTTCCCCGGGSCTTHHHHHHHHHTSCEEETTCSCEEEEEEEEECGGGCT
T ss_pred             EEEEEcChHHHHHHHHHHHhhcCCCCccccCCchHHHHhHHHHHhhhccCCCCCcEEEEEEEEecCCCc
Confidence            4444567775432        248999999999999999999999999988899999999999999983

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=96.73  E-value=0.0043  Score=60.57  Aligned_cols=42  Identities=21%  Similarity=0.169  Sum_probs=37.7

Q ss_pred             CC-Cceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SS-GKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~T-GiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .| |+..+|-++- +-+|+=++|.|+||+|||+|+.+++.++.+
T Consensus       225 ~t~G~~~LD~~lgGl~~G~l~li~G~pG~GKT~lal~~a~~~a~  268 (503)
T 1q57_A          225 LFSGCTGINDKTLGARGGEVIMVTSGSGMVMSTFVRQQALQWGT  268 (503)
T ss_dssp             CCSSCTTHHHHHCCCCTTCEEEEEESSCHHHHHHHHHHHHHHTT
T ss_pred             cccchhhhhHhhcccCCCeEEEEeecCCCCchHHHHHHHHHHHH
Confidence            78 9999998874 668999999999999999999999998853

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=96.72  E-value=0.00036  Score=68.62  Aligned_cols=61  Identities=62%  Similarity=1.066  Sum_probs=51.1

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-        -++.|.+++||.+.++.+..+|||+|++..+.||+|.++++.+++||-
T Consensus       253 VLl~~DdlTr~A~A~REisl~lge~P~~~GYp~~~f~~l~~l~ERag~~~~~~GSIT~l~~v~~~~dD~  321 (464)
T 3gqb_B          253 VLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVTQIPILSMPDDDR  321 (464)
T ss_dssp             EEEEEETHHHHHHHHHHHHHTTTCCBCGGGSBTTHHHHHHHHHTSCBCBTTCSCEEEEEEEEEETTSCT
T ss_pred             EEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHHHHHhhcccCCCCCcEEEEEEEEccCCCc
Confidence            4444567765422        248999999999999999999999999998899999999999999984

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.72  E-value=0.00035  Score=64.48  Aligned_cols=27  Identities=7%  Similarity=0.270  Sum_probs=24.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++.+.|.|++|+|||+|+..|++.+.
T Consensus       151 ~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          151 EQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             SCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999999999874

>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=96.71  E-value=0.00073  Score=61.00  Aligned_cols=41  Identities=22%  Similarity=0.221  Sum_probs=36.7

Q ss_pred             CC-Cceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SS-GKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~T-GiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .| |+.++|-+. .+.+|+-++|.|++|+|||||+.+|+....
T Consensus        18 ~t~g~~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           18 LFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             CCCSCTTHHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            78 999998664 688999999999999999999999998874

>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=96.70  E-value=0.0087  Score=53.08  Aligned_cols=27  Identities=11%  Similarity=0.091  Sum_probs=23.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ....++|.|++|+|||+|+..|++..+
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEESN   89 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            456799999999999999999999864

>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=96.54  E-value=0.0026  Score=60.01  Aligned_cols=40  Identities=0%  Similarity=-0.055  Sum_probs=34.8

Q ss_pred             CCCceeeeecc-cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          46 SSGKRAIDVMN-SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        46 ~TGiraID~l~-pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .||+.-+|-++ -+-+|.-++|.|+||+|||+|+.+++.+.
T Consensus       107 ~TGi~~LD~lLGGi~~gsviLI~GpPGsGKTtLAlqlA~~~  147 (331)
T 2vhj_A          107 VGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEAL  147 (331)
T ss_dssp             CSBCCEEEEETTEEEESEEEEEECSCSSSHHHHHHHHHHHH
T ss_pred             ccCcHHHHHHhCCCCCCcEEEEEcCCCCCHHHHHHHHHHhC
Confidence            69999999987 33477888999999999999999999873

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.54  E-value=0.00077  Score=57.02  Aligned_cols=25  Identities=12%  Similarity=0.226  Sum_probs=23.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++|.|++|+|||+|+..|++...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~   79 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA   79 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            7899999999999999999998874

>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=96.46  E-value=0.0096  Score=51.82  Aligned_cols=27  Identities=11%  Similarity=0.155  Sum_probs=23.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ....++|.|++|+|||+|+..|++..+
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~~~   64 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATEAQ   64 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            345689999999999999999999874

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.45  E-value=0.0017  Score=55.71  Aligned_cols=30  Identities=7%  Similarity=0.160  Sum_probs=24.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++.+|+.++|+|++|+|||||+..|+...
T Consensus        15 ~~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           15 QPAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            378999999999999999999999998765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.45  E-value=0.0018  Score=54.46  Aligned_cols=28  Identities=7%  Similarity=0.209  Sum_probs=24.8

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+|+.++|+||+|+|||||+..|+...
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4579999999999999999999998764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.43  E-value=0.0047  Score=55.39  Aligned_cols=28  Identities=7%  Similarity=0.097  Sum_probs=24.3

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+..++|.|++|+|||+|+..+++...
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~l~   92 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGLLH   92 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            3456799999999999999999998874

>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=96.42  E-value=0.011  Score=50.16  Aligned_cols=36  Identities=17%  Similarity=0.181  Sum_probs=29.0

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..+.--.+++.++|.|++|+|||+|+..+++...
T Consensus        42 ~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~   77 (242)
T 3bos_A           42 ALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN   77 (242)
T ss_dssp             HHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            334444444789999999999999999999999875

>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=96.42  E-value=0.0025  Score=61.58  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=23.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..++|.|++|+|||||+..|++...
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~  155 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999998873

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.41  E-value=0.0095  Score=57.88  Aligned_cols=31  Identities=16%  Similarity=0.223  Sum_probs=25.5

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +--++...++|.|++|+|||+|+..|++...
T Consensus        45 i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~   75 (447)
T 3pvs_A           45 IEAGHLHSMILWGPPGTGKTTLAEVIARYAN   75 (447)
T ss_dssp             HHHTCCCEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             HHcCCCcEEEEECCCCCcHHHHHHHHHHHhC
Confidence            3334445799999999999999999999874

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.36  E-value=0.0019  Score=56.30  Aligned_cols=30  Identities=10%  Similarity=0.181  Sum_probs=24.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+||+|+|||||+..|+...
T Consensus        18 l~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           18 GSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ----CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            567799999999999999999999998754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.31  E-value=0.013  Score=52.24  Aligned_cols=27  Identities=11%  Similarity=0.273  Sum_probs=24.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.|++|+|||+|+..|++..+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~~   79 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATECS   79 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHTT
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999998874

>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=96.22  E-value=0.0027  Score=53.21  Aligned_cols=30  Identities=3%  Similarity=0.025  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|+.|+|||||+..|+...
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            467899999999999999999999998875

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.18  E-value=0.0032  Score=53.48  Aligned_cols=31  Identities=10%  Similarity=0.106  Sum_probs=25.9

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .+.+|.++.|.|++|+|||||+..++...+.
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l~~   51 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKLNV   51 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            4678999999999999999999999988754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.18  E-value=0.0031  Score=52.99  Aligned_cols=29  Identities=14%  Similarity=0.271  Sum_probs=24.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.+|..++|.|++|+|||||+..|+...
T Consensus         2 ~i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            2 DNEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             --CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999999998764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.17  E-value=0.0029  Score=54.21  Aligned_cols=28  Identities=11%  Similarity=0.151  Sum_probs=25.7

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..+|+.++|+|++|+|||||+..|+...
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999999998875

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.15  E-value=0.0026  Score=56.45  Aligned_cols=32  Identities=19%  Similarity=0.213  Sum_probs=27.8

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        24 isl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           24 VNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            33678999999999999999999999887543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.14  E-value=0.02  Score=53.48  Aligned_cols=98  Identities=4%  Similarity=-0.038  Sum_probs=60.0

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc---chhHHHHHHhhhhCCccccEE
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN---METARFFKQDFEENGSMENVC  134 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer---~e~~~~~~~~l~~~g~~~~tv  134 (293)
                      -+++..+.|.|+||+|||+++..++++.....-      +.......+|++-|=.-   ......+.+.+....   .  
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~------~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~---~--  110 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLVNDVMDELITSSA------RKELPIFDYIHIDALELAGMDALYEKIWFAISKEN---L--  110 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTT------TTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC------
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhh------hccCCceEEEEEeccccCCHHHHHHHHHHHhcCCC---C--
Confidence            478999999999999999999999998753110      00011345666654332   245566777764321   0  


Q ss_pred             EEeeCCCCchhhhhchHHHHHHHHHHHHH---hcCCceEEEecchhHHH
Q psy5595         135 LFLNLANDPTIERIITPRLALTTAEFLAY---QCEKHVLVILTDMSSYA  180 (293)
Q Consensus       135 vv~stsd~~~~~r~~a~~~a~tiAEyfr~---~~G~~VLli~Dsltr~a  180 (293)
                          +... +         .-.+-++|..   ..++.+++++|++-++.
T Consensus       111 ----~~~~-~---------~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          111 ----CGDI-S---------LEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             -----CCC-C---------HHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             ----CchH-H---------HHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence                1111 1         1233455653   23678999999998876

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.09  E-value=0.0028  Score=55.80  Aligned_cols=31  Identities=16%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        23 vsl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           23 ISLSVKKGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEETTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3357889999999999999999999988754

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.06  E-value=0.003  Score=56.08  Aligned_cols=30  Identities=13%  Similarity=0.273  Sum_probs=27.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           26 FSIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            578899999999999999999999987654

>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=96.05  E-value=0.0028  Score=58.96  Aligned_cols=33  Identities=3%  Similarity=0.063  Sum_probs=29.5

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.-+.|.+|++++|+|++|+|||||+..|++-.
T Consensus       118 ~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          118 LWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cceEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            345788999999999999999999999998865

>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=96.02  E-value=0.021  Score=56.34  Aligned_cols=42  Identities=19%  Similarity=-0.004  Sum_probs=30.3

Q ss_pred             CceeeEecCCCCChhHHHHHHHH---HhcccccCCccccCCCCCceEEEEEecCccc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICR---QAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM  114 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~---~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~  114 (293)
                      ..-++|.|..|+|||+|+.++++   ..-+            .+-+.++++.+.+..
T Consensus       152 ~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~------------~~F~~~~wv~vs~~~  196 (549)
T 2a5y_B          152 SFFLFLHGRAGSGKSVIASQALSKSDQLIG------------INYDSIVWLKDSGTA  196 (549)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHCSSTBT------------TTBSEEEEEECCCCS
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHhhhHHHh------------ccCCcEEEEEECCCC
Confidence            35689999999999999999997   2211            123567777777653

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.97  E-value=0.0035  Score=56.55  Aligned_cols=30  Identities=17%  Similarity=0.114  Sum_probs=26.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        26 sl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           26 SLQARAGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999999999988754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.97  E-value=0.0042  Score=56.18  Aligned_cols=30  Identities=13%  Similarity=0.253  Sum_probs=27.1

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        40 sl~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           40 SLDVHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            357889999999999999999999998864

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.97  E-value=0.0033  Score=56.25  Aligned_cols=32  Identities=25%  Similarity=0.277  Sum_probs=27.8

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        28 vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           28 INLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33578899999999999999999999987654

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.96  E-value=0.0061  Score=59.20  Aligned_cols=42  Identities=17%  Similarity=0.173  Sum_probs=38.5

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .||+..+|-++- +-+|+-+.|.|+||+|||+|+.+|+.++.+
T Consensus       181 ~TG~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a~  223 (444)
T 3bgw_A          181 PSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSD  223 (444)
T ss_dssp             CCSCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHHH
Confidence            899999998875 779999999999999999999999999864

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.95  E-value=0.0047  Score=51.76  Aligned_cols=26  Identities=12%  Similarity=0.262  Sum_probs=23.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|+.++|+||+|+|||||+..|+...
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            68899999999999999999998864

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.95  E-value=0.0035  Score=56.79  Aligned_cols=30  Identities=17%  Similarity=0.243  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        32 l~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           32 LHIASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            678899999999999999999999987643

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.94  E-value=0.0041  Score=55.58  Aligned_cols=30  Identities=7%  Similarity=0.211  Sum_probs=27.1

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        23 sl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           23 NLVVPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            367889999999999999999999999863

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.94  E-value=0.0038  Score=53.42  Aligned_cols=27  Identities=7%  Similarity=0.201  Sum_probs=22.3

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -+|+.++|+||+|+|||||+..|....
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            368999999999999999999998754

>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=95.93  E-value=0.014  Score=53.49  Aligned_cols=26  Identities=15%  Similarity=0.304  Sum_probs=23.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.||+|+|||+|+..|++..+
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~~~   76 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATEAN   76 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHC
Confidence            35699999999999999999999874

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.93  E-value=0.0038  Score=52.08  Aligned_cols=25  Identities=12%  Similarity=0.181  Sum_probs=23.1

Q ss_pred             ccccCCceeeEecCCCCChhHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      +.+.+|+.++|+|++|+|||||+..
T Consensus         4 l~i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            4 LTIPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEESSEEEEEECCTTSCHHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHH
Confidence            4678999999999999999999995

>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=95.93  E-value=0.0043  Score=51.13  Aligned_cols=29  Identities=10%  Similarity=0.185  Sum_probs=25.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -+|..++|+|++|+|||||+..++...+.
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~g~   34 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQLHA   34 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhhCc
Confidence            46889999999999999999999887653

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.92  E-value=0.0036  Score=57.16  Aligned_cols=31  Identities=16%  Similarity=0.238  Sum_probs=27.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        28 sl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           28 NMNIKRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3578999999999999999999999987643

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.91  E-value=0.0037  Score=56.14  Aligned_cols=31  Identities=16%  Similarity=0.163  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        27 sl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           27 SISVNKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             CCEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999999999987543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.91  E-value=0.0037  Score=55.12  Aligned_cols=31  Identities=19%  Similarity=0.263  Sum_probs=27.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        28 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           28 NFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567899999999999999999999987654

>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=95.90  E-value=0.0039  Score=56.20  Aligned_cols=31  Identities=13%  Similarity=0.130  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        35 sl~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           35 SFEIEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578899999999999999999999987543

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.90  E-value=0.004  Score=56.46  Aligned_cols=32  Identities=9%  Similarity=0.152  Sum_probs=27.7

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        43 vsl~i~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           43 INVHIREGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEEEcCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            34678899999999999999999999987543

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.89  E-value=0.0038  Score=55.52  Aligned_cols=31  Identities=13%  Similarity=0.003  Sum_probs=27.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           22 SFEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999999999988643

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.89  E-value=0.0036  Score=55.02  Aligned_cols=29  Identities=14%  Similarity=0.315  Sum_probs=26.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        30 l~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           30 MTIEKGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEETTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            56889999999999999999999998754

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.87  E-value=0.0038  Score=55.43  Aligned_cols=29  Identities=21%  Similarity=0.320  Sum_probs=26.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        27 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           27 LKVPRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            56889999999999999999999998754

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.86  E-value=0.027  Score=52.90  Aligned_cols=27  Identities=11%  Similarity=0.288  Sum_probs=24.0

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.|++|+|||+|+..|++..+
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            357899999999999999999988863

>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=95.85  E-value=0.022  Score=53.08  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=23.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ....++|.|++|+|||+|+..|++..+
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~~~  142 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQSG  142 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHcC
Confidence            456799999999999999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.85  E-value=0.0042  Score=56.37  Aligned_cols=31  Identities=13%  Similarity=0.157  Sum_probs=27.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        39 sl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           39 TFTLYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578899999999999999999999987643

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.84  E-value=0.0042  Score=55.93  Aligned_cols=30  Identities=20%  Similarity=0.203  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        41 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           41 FFIPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            568899999999999999999999987643

>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=95.84  E-value=0.0093  Score=54.82  Aligned_cols=27  Identities=7%  Similarity=-0.004  Sum_probs=24.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..+..++|.|++|+|||+|+..++++.
T Consensus        43 ~~~~~vll~G~~G~GKT~la~~l~~~~   69 (384)
T 2qby_B           43 EVKFSNLFLGLTGTGKTFVSKYIFNEI   69 (384)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            446679999999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.83  E-value=0.0041  Score=56.78  Aligned_cols=32  Identities=16%  Similarity=0.246  Sum_probs=27.7

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        40 isl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           40 ISWQIAKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34578899999999999999999999987643

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.82  E-value=0.0048  Score=58.67  Aligned_cols=32  Identities=19%  Similarity=0.253  Sum_probs=28.4

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+..+|+||+|+|||||+..|+.-
T Consensus        22 ~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           22 DISLSLDPGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             eeEEEEcCCCEEEEECCCCchHHHHHHHHhcC
Confidence            44467899999999999999999999999874

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.82  E-value=0.0043  Score=55.75  Aligned_cols=32  Identities=9%  Similarity=0.277  Sum_probs=27.6

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        19 vsl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           19 LSGEVRAGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34578899999999999999999999987543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.80  E-value=0.0045  Score=55.88  Aligned_cols=30  Identities=10%  Similarity=0.124  Sum_probs=26.9

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        27 sl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           27 SLVINEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            367899999999999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.80  E-value=0.0034  Score=54.47  Aligned_cols=37  Identities=14%  Similarity=0.160  Sum_probs=20.6

Q ss_pred             CCceeeeecccccCCceeeEecCCCCChhHHHHHHH-HHh
Q psy5595          47 SGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQIC-RQA   85 (293)
Q Consensus        47 TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~-~~~   85 (293)
                      |...-+++  .+.+|+.++|+||+|+|||||+..|+ ...
T Consensus        15 ~~~~~~sl--~v~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           15 QTQGPGSM--LKSVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             -------C--CEECCCEEEEECSCC----CHHHHHHC---
T ss_pred             cccCCCCc--ccCCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            33444443  46789999999999999999999998 653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.79  E-value=0.005  Score=54.16  Aligned_cols=31  Identities=13%  Similarity=0.086  Sum_probs=26.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.+|..++|.||+|+|||||+..|+...+
T Consensus        20 l~i~~g~iigI~G~~GsGKSTl~k~L~~~lG   50 (245)
T 2jeo_A           20 FQSMRPFLIGVSGGTASGKSTVCEKIMELLG   50 (245)
T ss_dssp             ---CCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5788999999999999999999999988654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.77  E-value=0.0044  Score=55.64  Aligned_cols=30  Identities=7%  Similarity=0.205  Sum_probs=26.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        26 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           26 FDLNKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            568899999999999999999999987643

>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=95.77  E-value=0.0066  Score=50.93  Aligned_cols=30  Identities=23%  Similarity=0.361  Sum_probs=26.6

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHH-hc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQ-AG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~-~~   86 (293)
                      +..+|.+++|.|++|+||||++..++.. .+
T Consensus         6 ~~~~~~~I~l~G~~GsGKSTv~~~La~~l~g   36 (184)
T 1y63_A            6 EQPKGINILITGTPGTGKTSMAEMIAAELDG   36 (184)
T ss_dssp             CCCSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            4567899999999999999999999987 44

>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=95.76  E-value=0.013  Score=52.69  Aligned_cols=26  Identities=23%  Similarity=0.441  Sum_probs=23.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.|++|+|||+|+..|+++.+
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~~~~   63 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAHELG   63 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHHHHT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHhC
Confidence            46799999999999999999998764

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.71  E-value=0.0067  Score=49.65  Aligned_cols=27  Identities=19%  Similarity=0.288  Sum_probs=24.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .|..++|.|++|+|||||+..|+...+
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.71  E-value=0.0056  Score=51.97  Aligned_cols=29  Identities=17%  Similarity=0.208  Sum_probs=24.7

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+|..++|.|++|+|||||+..|+....
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46889999999999999999999988653

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=95.71  E-value=0.0021  Score=63.78  Aligned_cols=60  Identities=22%  Similarity=0.280  Sum_probs=49.7

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        +++|.+++||.+.++.++.+|||+|+  .+.||+|.+++|.+|+||-
T Consensus       267 dVLl~~DsitR~A~A~rEvs~~lge~Ps~~GYpp~l~~~l~~L~ERag~--~~~GSIT~i~tV~v~~dD~  334 (498)
T 1fx0_B          267 DVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITS--TKEGSITSIQAVYVPADDL  334 (498)
T ss_dssp             EEEEEEECSHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHHHHTSSSSSC--CTTCEECCEEEEECGGGCS
T ss_pred             cEEEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHHHHHHHhccC--CCCCceeeeEEEEccCCCc
Confidence            455556777755322        48999999999999999999999996  5689999999999999884

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.69  E-value=0.086  Score=48.91  Aligned_cols=31  Identities=10%  Similarity=0.004  Sum_probs=27.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.+|+.++|.|++|+||||++..|+....
T Consensus       100 ~~~~~~~vI~ivG~~G~GKTT~~~~LA~~l~  130 (320)
T 1zu4_A          100 FKENRLNIFMLVGVNGTGKTTSLAKMANYYA  130 (320)
T ss_dssp             CCTTSCEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             ccCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3568899999999999999999999998764

>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=95.69  E-value=0.016  Score=51.33  Aligned_cols=127  Identities=7%  Similarity=0.103  Sum_probs=67.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEee
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLN  138 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~s  138 (293)
                      .+|+-++|.|++|+||||++.++++++...           .....++-...+.| .+. .+   ...-|+-....-+ .
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~~-----------g~kVli~~~~~d~r-~~~-~i---~srlG~~~~~~~~-~   72 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEYA-----------DVKYLVFKPKIDTR-SIR-NI---QSRTGTSLPSVEV-E   72 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHHT-----------TCCEEEEEECCCGG-GCS-SC---CCCCCCSSCCEEE-S
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHhc-----------CCEEEEEEeccCch-HHH-HH---HHhcCCCcccccc-C
Confidence            468888899999999999999888877421           11223332355554 211 11   1111211111111 0


Q ss_pred             CCCCchhhhhchHHHHHHHHHHHHHh--cCCceEEEecchhHH----HHHHHHHhhhcCCCC----C-CCCCCCchhhhH
Q psy5595         139 LANDPTIERIITPRLALTTAEFLAYQ--CEKHVLVILTDMSSY----AEALREVSAAREEVP----G-RRGFPGYMYTNL  207 (293)
Q Consensus       139 tsd~~~~~r~~a~~~a~tiAEyfr~~--~G~~VLli~Dsltr~----a~A~reisl~~ge~p----~-~~gyp~~lf~~l  207 (293)
                                 ..   ..+-+++++.  .++..+|++|++-.+    .+..+.+...  ..|    | +..|.+..|...
T Consensus        73 -----------~~---~~i~~~i~~~~~~~~~dvViIDEaQ~l~~~~ve~l~~L~~~--gi~Vil~Gl~~df~~~~F~~~  136 (223)
T 2b8t_A           73 -----------SA---PEILNYIMSNSFNDETKVIGIDEVQFFDDRICEVANILAEN--GFVVIISGLDKNFKGEPFGPI  136 (223)
T ss_dssp             -----------ST---HHHHHHHHSTTSCTTCCEEEECSGGGSCTHHHHHHHHHHHT--TCEEEEECCSBCTTSSBCTTH
T ss_pred             -----------CH---HHHHHHHHHHhhCCCCCEEEEecCccCcHHHHHHHHHHHhC--CCeEEEEeccccccCCcCCCc
Confidence                       01   1223333321  134568899998654    2234444332  222    1 236788888888


Q ss_pred             HHHhhhhcccC
Q psy5595         208 ATIYERAGRVE  218 (293)
Q Consensus       208 a~l~ERag~~~  218 (293)
                      +.|++.|-.+.
T Consensus       137 ~~Ll~lAD~V~  147 (223)
T 2b8t_A          137 AKLFTYADKIT  147 (223)
T ss_dssp             HHHHHHCSEEE
T ss_pred             HHHHHHhheEe
Confidence            89999887654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.68  E-value=0.0049  Score=60.72  Aligned_cols=37  Identities=11%  Similarity=0.156  Sum_probs=32.9

Q ss_pred             CCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHH
Q psy5595          46 SSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        46 ~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      .||+.++|-+.  .+.+|+..+|+|++|+|||||+.+++
T Consensus        22 ~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           22 RTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             CCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHH
Confidence            78999998654  68899999999999999999999963

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.67  E-value=0.0063  Score=58.34  Aligned_cols=32  Identities=13%  Similarity=0.189  Sum_probs=28.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+..+|+||+|+|||||+..|+.-.
T Consensus        22 vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           22 INLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             eEEEECCCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            34678999999999999999999999998643

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=95.65  E-value=0.0064  Score=57.74  Aligned_cols=32  Identities=9%  Similarity=0.184  Sum_probs=28.2

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           21 GVSFEVKDGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             eeEEEEcCCCEEEEEcCCCchHHHHHHHHHCC
Confidence            44467889999999999999999999999864

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.65  E-value=0.006  Score=53.49  Aligned_cols=28  Identities=18%  Similarity=0.436  Sum_probs=23.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|  ++|+|++|+|||+|+..|+....
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHhC
Confidence            34556  99999999999999999998763

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.65  E-value=0.0061  Score=57.85  Aligned_cols=32  Identities=19%  Similarity=0.256  Sum_probs=28.0

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        33 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           33 GVSFQIREGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34467889999999999999999999999864

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.65  E-value=0.0065  Score=57.95  Aligned_cols=32  Identities=13%  Similarity=0.184  Sum_probs=28.1

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        29 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           29 KLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eeEEEECCCCEEEEECCCCChHHHHHHHHHcC
Confidence            34467889999999999999999999999864

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.65  E-value=0.02  Score=55.40  Aligned_cols=25  Identities=8%  Similarity=0.259  Sum_probs=23.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -++++||||||||.|+..||+.++.
T Consensus       184 GvLL~GPPGTGKTllAkAiA~e~~~  208 (405)
T 4b4t_J          184 GVILYGPPGTGKTLLARAVAHHTDC  208 (405)
T ss_dssp             CEEEESCSSSSHHHHHHHHHHHHTC
T ss_pred             ceEEeCCCCCCHHHHHHHHHHhhCC
Confidence            4899999999999999999999863

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.64  E-value=0.0066  Score=57.71  Aligned_cols=32  Identities=13%  Similarity=0.243  Sum_probs=28.0

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           21 NINLKIKDGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eeEEEECCCCEEEEECCCCchHHHHHHHHhcC
Confidence            34467889999999999999999999999864

>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=95.63  E-value=0.0058  Score=51.91  Aligned_cols=31  Identities=10%  Similarity=0.056  Sum_probs=27.2

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ...+.+|..++|.|++|+|||||+..|+...
T Consensus        15 ~~~~~~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           15 VPRGSKTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCCSCCCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4457889999999999999999999998754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.62  E-value=0.0047  Score=53.92  Aligned_cols=27  Identities=19%  Similarity=0.081  Sum_probs=24.8

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+|+.++|+|++|+|||||+..|+..
T Consensus        19 i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            478999999999999999999988865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.60  E-value=0.0064  Score=54.96  Aligned_cols=28  Identities=14%  Similarity=0.319  Sum_probs=24.2

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|  ++|+||+|+|||+|+..|+...+
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHHHHHHHHTT
T ss_pred             CCCCe--EEEECCCCCcHHHHHHHHHHHcC
Confidence            34566  99999999999999999998764

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.57  E-value=0.018  Score=55.93  Aligned_cols=23  Identities=4%  Similarity=0.268  Sum_probs=22.1

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.||||||||.|+..||+..+
T Consensus       209 iLL~GPPGtGKT~lakAiA~~~~  231 (428)
T 4b4t_K          209 VLLYGPPGTGKTMLVKAVANSTK  231 (428)
T ss_dssp             EEEESCTTTTHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999999985

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.56  E-value=0.0068  Score=57.77  Aligned_cols=32  Identities=9%  Similarity=0.179  Sum_probs=28.1

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           21 EMSLEVKDGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             eeEEEEcCCCEEEEECCCCcHHHHHHHHHHcC
Confidence            44467889999999999999999999999864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.55  E-value=0.0075  Score=51.83  Aligned_cols=25  Identities=4%  Similarity=0.149  Sum_probs=23.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|+|++|+|||||+..|+...
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhc
Confidence            7899999999999999999998865

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.54  E-value=0.023  Score=55.42  Aligned_cols=26  Identities=12%  Similarity=0.313  Sum_probs=23.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      --++++||||||||.|+..||+..+.
T Consensus       216 rGvLL~GPPGtGKTllAkAiA~e~~~  241 (437)
T 4b4t_L          216 KGVLLYGPPGTGKTLLAKAVAATIGA  241 (437)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            45999999999999999999999863

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=95.54  E-value=0.027  Score=51.16  Aligned_cols=59  Identities=8%  Similarity=-0.077  Sum_probs=49.1

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      .|||.-+|-++-  +-+|.-.+|.|+||+|||+|+.+++.+..+             .+..|+|+...|..+..
T Consensus         4 ~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~-------------~Ge~~~~~~~~e~~~~l   64 (260)
T 3bs4_A            4 SWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKLK-------------SDNLVGMFSISYPLQLI   64 (260)
T ss_dssp             CCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHHH-------------TTCEEEEEECSSCHHHH
T ss_pred             ccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHHH-------------CCCcEEEEEEeCCHHHH
Confidence            699999999875  458999999999999999999999887653             25689999999887654

>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=95.51  E-value=0.0036  Score=52.60  Aligned_cols=28  Identities=4%  Similarity=0.045  Sum_probs=25.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++.+|.+++|+|++|+|||||+..++.
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            7899999999999999999999987764

>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=95.50  E-value=0.0074  Score=57.90  Aligned_cols=30  Identities=20%  Similarity=0.335  Sum_probs=27.1

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        41 sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           41 SFSISPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             eEEEcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            357899999999999999999999999863

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.48  E-value=0.018  Score=56.13  Aligned_cols=26  Identities=12%  Similarity=0.176  Sum_probs=23.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -.++++||||||||.|+..||++.+.
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~e~~~  241 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAAQTNA  241 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CeeEEECcCCCCHHHHHHHHHHHhCC
Confidence            35999999999999999999999863

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.45  E-value=0.0061  Score=54.96  Aligned_cols=34  Identities=9%  Similarity=-0.006  Sum_probs=28.7

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++-+. +.+|+.++|.||+|+|||||+..|+...
T Consensus        16 vl~~i~-i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           16 KVLELC-HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             HHHHGG-GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             HHHHHh-hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            344444 8899999999999999999999988754

>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=95.44  E-value=0.0071  Score=55.59  Aligned_cols=31  Identities=19%  Similarity=0.263  Sum_probs=27.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        58 sl~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           58 NFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3578899999999999999999999987654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.43  E-value=0.0056  Score=57.89  Aligned_cols=32  Identities=13%  Similarity=0.174  Sum_probs=28.0

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |.=+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        18 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           18 NLSLKVESGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEEECTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             eeEEEEcCCCEEEEECCCCccHHHHHHHHHcC
Confidence            34467899999999999999999999999864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.39  E-value=0.01  Score=50.49  Aligned_cols=28  Identities=11%  Similarity=0.252  Sum_probs=25.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|.-+.|.|++|+|||||+..++...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            5789999999999999999999998865

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.39  E-value=0.0082  Score=48.72  Aligned_cols=28  Identities=7%  Similarity=0.108  Sum_probs=24.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+..++|.|++|+|||+|+..+++...
T Consensus        41 ~~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            5577899999999999999999998864

>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=95.37  E-value=0.0092  Score=56.90  Aligned_cols=35  Identities=17%  Similarity=0.241  Sum_probs=29.6

Q ss_pred             eee-eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          50 RAI-DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        50 raI-D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .++ |.=+.+.+|+..+|+|++|+|||||+..|+.-
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHHHHHHhcC
Confidence            344 34478999999999999999999999988764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.35  E-value=0.008  Score=54.42  Aligned_cols=28  Identities=18%  Similarity=0.294  Sum_probs=25.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+. |+.++|+|++|+|||||+..|+..
T Consensus        26 l~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           26 LEVN-GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEC-SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEC-CEEEEEECCCCCCHHHHHHHHhCC
Confidence            4677 999999999999999999998764

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.35  E-value=0.045  Score=53.63  Aligned_cols=26  Identities=23%  Similarity=0.273  Sum_probs=22.3

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +..+-++|.|++|+|||+|+.+++++
T Consensus       145 ~~~~~v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          145 GEPGWVTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             TSCEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CCCceEEEEcCCCCCHHHHHHHHHhc
Confidence            34567899999999999999998764

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=95.33  E-value=0.049  Score=47.60  Aligned_cols=107  Identities=12%  Similarity=0.025  Sum_probs=53.7

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEec-C-ccchhHHHHHHhhh---
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAM-G-VNMETARFFKQDFE---  125 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~i-G-er~e~~~~~~~~l~---  125 (293)
                      ..+...+.-+ .++.|++++|.||||++..++..+..          | +.. ++|+=.+ | ....|...+. .|.   
T Consensus        19 ~~~~~~~~~~-g~i~v~tG~GkGKTTaA~GlalRA~g----------~-G~r-V~~vQF~Kg~~~~gE~~~l~-~L~v~~   84 (196)
T 1g5t_A           19 ARVAQAQEER-GIIIVFTGNGKGKTTAAFGTAARAVG----------H-GKN-VGVVQFIKGTWPNGERNLLE-PHGVEF   84 (196)
T ss_dssp             --------CC-CCEEEEESSSSCHHHHHHHHHHHHHH----------T-TCC-EEEEESSCCSSCCHHHHHHG-GGTCEE
T ss_pred             hhhhhccccC-ceEEEECCCCCCHHHHHHHHHHHHHH----------C-CCe-EEEEEeeCCCCCccHHHHHH-hCCcEE
Confidence            3444555545 47899999999999999988777642          1 111 3333222 3 2233333332 231   


Q ss_pred             -hCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhH
Q psy5595         126 -ENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSS  178 (293)
Q Consensus       126 -~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr  178 (293)
                       ..|   ..  |.- ...........+..++..+...... ++.-|||+|+++.
T Consensus        85 ~~~g---~g--f~~-~~~~~~~~~~~a~~~l~~a~~~l~~-~~yDlvILDEi~~  131 (196)
T 1g5t_A           85 QVMA---TG--FTW-ETQNREADTAACMAVWQHGKRMLAD-PLLDMVVLDELTY  131 (196)
T ss_dssp             EECC---TT--CCC-CGGGHHHHHHHHHHHHHHHHHHTTC-TTCSEEEEETHHH
T ss_pred             EEcc---cc--ccc-CCCCcHHHHHHHHHHHHHHHHHHhc-CCCCEEEEeCCCc
Confidence             111   10  111 1111123445566666666554444 7788999999976

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.31  E-value=0.01  Score=50.36  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=25.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+|+.+.|.|++|+|||||+..|+...
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999998876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.31  E-value=0.009  Score=53.34  Aligned_cols=28  Identities=18%  Similarity=0.436  Sum_probs=23.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|  ++|+|++|+|||+|+..|+....
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHHcC
Confidence            34456  99999999999999999998763

>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=95.31  E-value=0.012  Score=51.34  Aligned_cols=30  Identities=13%  Similarity=0.218  Sum_probs=25.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .|.-+|.-+.|.||+|+|||||+..|+...
T Consensus        14 ~~~~~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           14 LYFQGRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             --CCSCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCCCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            355689999999999999999999998764

>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=95.28  E-value=0.01  Score=50.36  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++|+|++|+|||||+..|+....
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3789999999999999999998763

>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=95.27  E-value=0.005  Score=57.17  Aligned_cols=31  Identities=16%  Similarity=0.253  Sum_probs=27.8

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.|.+|+.++|+|++|+|||||+..|++-.
T Consensus        74 sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           74 SFTVMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             eEEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            3678999999999999999999999998754

>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=95.26  E-value=0.05  Score=49.31  Aligned_cols=29  Identities=10%  Similarity=0.269  Sum_probs=25.5

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..+..++|.|++|+|||+|+..|++..+
T Consensus        46 ~~~~~~vLL~Gp~GtGKT~la~ala~~~~   74 (301)
T 3cf0_A           46 MTPSKGVLFYGPPGCGKTLLAKAIANECQ   74 (301)
T ss_dssp             CCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CCCCceEEEECCCCcCHHHHHHHHHHHhC
Confidence            34677899999999999999999999874

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.26  E-value=0.0096  Score=49.27  Aligned_cols=27  Identities=19%  Similarity=0.385  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|..+.|.|++|+||||++..++...+
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            678999999999999999999998664

>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=95.23  E-value=0.012  Score=51.56  Aligned_cols=27  Identities=15%  Similarity=0.292  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++..++|+|++|+|||||+..|+..-+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999999997764

>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=95.23  E-value=0.012  Score=50.51  Aligned_cols=27  Identities=15%  Similarity=0.345  Sum_probs=24.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+|.-++|.||+|+|||||+..++...
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            478999999999999999999998765

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.21  E-value=0.055  Score=49.77  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=23.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ...++|.||+|+|||+|+..+++..
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             CceEEEECCCCccHHHHHHHHHHHc
Confidence            4679999999999999999999987

>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=95.20  E-value=0.069  Score=52.96  Aligned_cols=31  Identities=13%  Similarity=0.079  Sum_probs=27.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.+|+.++|+|++|+|||||+..|+....
T Consensus       288 l~i~~GeVI~LVGpNGSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          288 VEGKAPFVILMVGVNGVGKTTTIGKLARQFE  318 (503)
T ss_dssp             CCSCTTEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eeccCCeEEEEECCCcccHHHHHHHHHHHhh
Confidence            4688999999999999999999999988653

>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=95.20  E-value=0.012  Score=51.65  Aligned_cols=28  Identities=11%  Similarity=0.255  Sum_probs=24.0

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +-+|+.++|+||+|+|||||+..|+...
T Consensus        13 ~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           13 MAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            4579999999999999999999988764

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.19  E-value=0.0057  Score=57.83  Aligned_cols=31  Identities=19%  Similarity=0.284  Sum_probs=27.4

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.+.+|+.++|+||+|+|||||+..|+.-
T Consensus        24 vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           24 VNINIENGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             eEEEECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3457889999999999999999999999864

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.17  E-value=0.012  Score=54.57  Aligned_cols=30  Identities=7%  Similarity=-0.062  Sum_probs=26.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|+.++|.|++|+|||||+..|+....
T Consensus        86 ~~~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           86 DRPVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             SSCCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            378999999999999999999999987653

>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=95.16  E-value=0.076  Score=49.50  Aligned_cols=26  Identities=15%  Similarity=0.304  Sum_probs=23.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.||+|+|||+|+..|++..+
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~~~  109 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATEAN  109 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHhC
Confidence            34599999999999999999999874

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.15  E-value=0.052  Score=49.27  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=22.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++|.|++|+|||+|+..|++..+
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999998874

>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=95.15  E-value=0.0094  Score=49.75  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=21.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.++|+|++|+|||||+..|+..
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhcc
Confidence            677899999999999999999864

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.13  E-value=0.032  Score=54.49  Aligned_cols=25  Identities=16%  Similarity=0.314  Sum_probs=23.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -++++||||||||.|+..||+..+.
T Consensus       218 GvLLyGPPGTGKTlLAkAiA~e~~~  242 (437)
T 4b4t_I          218 GVILYGAPGTGKTLLAKAVANQTSA  242 (437)
T ss_dssp             EEEEESSTTTTHHHHHHHHHHHHTC
T ss_pred             CCceECCCCchHHHHHHHHHHHhCC
Confidence            4999999999999999999999863

>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=95.03  E-value=0.016  Score=48.01  Aligned_cols=29  Identities=14%  Similarity=0.296  Sum_probs=25.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -++..+.|.|++|+||||++..++...+.
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~~~   37 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKSGL   37 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            46789999999999999999999988754

>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=95.03  E-value=0.015  Score=49.64  Aligned_cols=27  Identities=11%  Similarity=0.126  Sum_probs=23.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.+++|.|++|+||||++..|+..-+
T Consensus         4 ~~~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            4 IAPVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CSCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999988653

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=95.01  E-value=0.0054  Score=60.59  Aligned_cols=59  Identities=22%  Similarity=0.313  Sum_probs=48.3

Q ss_pred             EEecCCCccccc--------cccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSA--------AREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi--------~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..        .-+++|.+++||.+.++.++.+|||++.  .+.||+|.++++.+++||-
T Consensus       255 VLll~DsitR~A~A~rEis~~lge~P~~~GYpp~l~~~l~~l~ERag~--~~~GSIT~i~tv~v~~dD~  321 (482)
T 2ck3_D          255 VLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITT--TKKGSITSVQAIYVPADDL  321 (482)
T ss_dssp             EEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSC--CSSCCEEEEEEEECGGGCT
T ss_pred             EEEEeccHHHHHHHHHHhhhhcCCCCccccCchhHHHHhHHHHHhhcC--CCCCceeeeEEEEecCCCC
Confidence            444456776543        2258999999999999999999999995  4689999999999999884

>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=94.96  E-value=0.11  Score=50.68  Aligned_cols=28  Identities=11%  Similarity=0.142  Sum_probs=24.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++..+++.|++|+||||++..+++...
T Consensus        98 ~~p~vIlivG~~G~GKTTt~~kLA~~l~  125 (443)
T 3dm5_A           98 EKPTILLMVGIQGSGKTTTVAKLARYFQ  125 (443)
T ss_dssp             SSSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHHHHH
Confidence            3578899999999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.95  E-value=0.015  Score=51.74  Aligned_cols=32  Identities=13%  Similarity=0.134  Sum_probs=26.9

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+ +.++|+|++|+|||||+..|+.-.
T Consensus        17 ~isl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           17 NVDFEMGR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEEECS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             eeEEEECC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            33456889 999999999999999999998643

>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=94.94  E-value=0.017  Score=47.56  Aligned_cols=27  Identities=4%  Similarity=0.087  Sum_probs=23.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|..+.|.|++|+||||++..++...+
T Consensus         2 ~~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            2 KNKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             -CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.94  E-value=0.017  Score=57.48  Aligned_cols=35  Identities=11%  Similarity=0.172  Sum_probs=29.6

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++.+..+.+|++++|+|++|+|||||+..|+...
T Consensus        37 ~l~~vs~i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           37 VLYRLPVVKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cccCcCcCCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45555468999999999999999999999998643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.89  E-value=0.018  Score=47.12  Aligned_cols=26  Identities=12%  Similarity=0.123  Sum_probs=23.3

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      =|.++|.|++|+||||++..++...+
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            38999999999999999999998765

>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=94.89  E-value=0.003  Score=54.55  Aligned_cols=33  Identities=12%  Similarity=0.101  Sum_probs=26.6

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN  113 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer  113 (293)
                      ++|.|++|+|||+++.+++.+ +.                -++|++-++.
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~----------------~~~yiaT~~~   34 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-AP----------------QVLYIATSQI   34 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CS----------------SEEEEECCCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CC----------------CeEEEecCCC
Confidence            689999999999999998755 31                2688888774

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.88  E-value=0.0065  Score=59.90  Aligned_cols=45  Identities=27%  Similarity=0.401  Sum_probs=41.3

Q ss_pred             cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         244 EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       244 ~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      +++|.+++||.+.++.++..|||++.  .+.||+|.++++.+++||-
T Consensus       269 ge~P~~~GYp~~~~~~l~~l~ERa~~--~~~GSIT~i~tv~~~~dD~  313 (473)
T 1sky_E          269 GRMPSAIGYQPTLATEMGQLQERITS--TAKGSITSIQAIYVPADDY  313 (473)
T ss_dssp             TCCCCGGGCCTTHHHHHHHHHTTSSC--BSSCEEEEEEECCCSTTCS
T ss_pred             CCCCccccCCchhhhHHHHHHHHhcC--CCCCceEEEEEEEecCCCC
Confidence            48999999999999999999999996  4679999999999999984

>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=94.87  E-value=0.012  Score=55.09  Aligned_cols=29  Identities=3%  Similarity=0.115  Sum_probs=26.0

Q ss_pred             ccC--CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IAR--GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igr--GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+  |++.+|+|++|+|||||+..|+....
T Consensus       165 v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          165 ARPFFAKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             TGGGTCEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             HHHhhhCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            456  99999999999999999999998764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.82  E-value=0.047  Score=53.70  Aligned_cols=27  Identities=11%  Similarity=0.209  Sum_probs=24.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ---+++.||||||||.|+..||+.++.
T Consensus       243 prGILLyGPPGTGKTlLAkAiA~e~~~  269 (467)
T 4b4t_H          243 PKGILLYGPPGTGKTLCARAVANRTDA  269 (467)
T ss_dssp             CSEEEECSCTTSSHHHHHHHHHHHHTC
T ss_pred             CCceEeeCCCCCcHHHHHHHHHhccCC
Confidence            446999999999999999999999863

>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=94.81  E-value=0.2  Score=46.60  Aligned_cols=30  Identities=10%  Similarity=0.030  Sum_probs=26.6

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .-.+|+.++|+|++|+|||||+..|+....
T Consensus       125 ~~~~g~vi~lvG~nGaGKTTll~~Lag~l~  154 (328)
T 3e70_C          125 KAEKPYVIMFVGFNGSGKTTTIAKLANWLK  154 (328)
T ss_dssp             SSCSSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            347899999999999999999999998764

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=94.79  E-value=0.0057  Score=56.90  Aligned_cols=33  Identities=6%  Similarity=0.108  Sum_probs=29.0

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +|.|+++-+|+..+|+|++|+|||||+..|+..
T Consensus       164 ~~~L~~~~~G~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          164 LADIIPHFQDKTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             CTTTGGGGTTSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             HHHHHhhcCCCEEEEECCCCCCHHHHHHHhccc
Confidence            577888999999999999999999999988643

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.79  E-value=0.019  Score=52.96  Aligned_cols=31  Identities=10%  Similarity=0.073  Sum_probs=27.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.+|+.++|+|++|+|||||+..|+....
T Consensus        95 ~~~~~g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A           95 LGFRKPAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             CCSSSCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cccCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3578999999999999999999999998753

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.78  E-value=0.015  Score=54.16  Aligned_cols=31  Identities=10%  Similarity=0.176  Sum_probs=27.3

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        49 ~~~~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           49 LPQTGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             GGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcccCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            3568999999999999999999999998653

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.78  E-value=0.014  Score=57.07  Aligned_cols=32  Identities=16%  Similarity=0.300  Sum_probs=27.8

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|++++|+|++|+|||||+..|+.-.
T Consensus       131 vsl~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          131 IRMSNFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             HHHHSSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CceEeCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            33567799999999999999999999998754

>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=94.76  E-value=0.05  Score=50.12  Aligned_cols=25  Identities=16%  Similarity=0.270  Sum_probs=23.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++|.||+|+|||||+..|++..+
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l~   76 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASELQ   76 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            7799999999999999999999874

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.75  E-value=0.021  Score=46.82  Aligned_cols=26  Identities=8%  Similarity=-0.031  Sum_probs=23.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |..+.|.|++|+||||++..++...+
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            56789999999999999999998764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=94.75  E-value=0.016  Score=46.89  Aligned_cols=27  Identities=11%  Similarity=0.067  Sum_probs=23.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..+..++|.|++|+|||+|+..|.+..
T Consensus        22 ~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           22 ETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             TCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            356789999999999999999998865

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.74  E-value=0.017  Score=52.94  Aligned_cols=29  Identities=10%  Similarity=-0.036  Sum_probs=25.8

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +..+|..++|.|++|+|||||+..|+...
T Consensus        76 ~~~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           76 GQRIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999999999999998865

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.74  E-value=0.021  Score=48.11  Aligned_cols=29  Identities=7%  Similarity=-0.040  Sum_probs=25.5

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+|..+.|.|++|+||||++..++...+
T Consensus         7 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~   35 (212)
T 2wwf_A            7 KKKGKFIVFEGLDRSGKSTQSKLLVEYLK   35 (212)
T ss_dssp             CBCSCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             hhcCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34688999999999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=94.73  E-value=0.016  Score=52.57  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++|.||||+|||+|+..|++..+
T Consensus        38 ~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           38 ILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            366779999999999999999985

>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=94.71  E-value=0.023  Score=55.91  Aligned_cols=41  Identities=22%  Similarity=0.221  Sum_probs=35.5

Q ss_pred             CCCceeeeecc--cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMN--SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~--pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+.-+|-++  .+-+|+.++|.|++|+|||||+.+++....
T Consensus       264 ~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~  306 (525)
T 1tf7_A          264 SSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC  306 (525)
T ss_dssp             CCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            68887777654  788999999999999999999999988764

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=94.70  E-value=0.042  Score=59.39  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=21.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ..-++|.|++|+|||+|+.++++.
T Consensus       150 ~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          150 AKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             SCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCccHHHHHHHHHHh
Confidence            457899999999999999999864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.70  E-value=0.021  Score=50.68  Aligned_cols=28  Identities=11%  Similarity=0.164  Sum_probs=25.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|..++|.|++|+|||||+..|+..-+
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999999997654

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=94.66  E-value=0.021  Score=47.25  Aligned_cols=26  Identities=12%  Similarity=0.120  Sum_probs=22.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +...++|.|++|+|||+|+..+++..
T Consensus        37 ~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           37 NIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            44459999999999999999999876

>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=94.66  E-value=0.25  Score=47.93  Aligned_cols=28  Identities=11%  Similarity=-0.007  Sum_probs=24.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++..+++.|++|+||||++..++....
T Consensus        95 ~~~~vI~lvG~~GsGKTTt~~kLA~~l~  122 (433)
T 3kl4_A           95 KLPFIIMLVGVQGSGKTTTAGKLAYFYK  122 (433)
T ss_dssp             SSSEEEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3688899999999999999999998764

>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=94.66  E-value=0.22  Score=47.52  Aligned_cols=28  Identities=11%  Similarity=0.099  Sum_probs=23.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +..-+.|.|++|+||||++..++...+.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~  284 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGY  284 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            4566888999999999999999876643

>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=94.65  E-value=0.0083  Score=59.60  Aligned_cols=60  Identities=33%  Similarity=0.588  Sum_probs=49.0

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccc-------------cCCccccccceeecCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVE-------------GRNGSITQIPILTMPND  288 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~-------------~~~Gs~~~~~~~~~~~~  288 (293)
                      |++--||++-..-.        ++.|.+++||...+..+...+||+|++.             .+.||+|.++++.+++|
T Consensus       256 VLli~Dsltr~A~A~REisl~lgepP~r~gYP~~vf~~~srLlERAg~~~~~~~~~~~~~~~~g~~GSITal~~V~~~~d  335 (513)
T 3oaa_A          256 ALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTALPIIETQAG  335 (513)
T ss_dssp             EEEEEETHHHHHHHHHHHHHHTTCCBCTTSCBTTHHHHHHHHHTTCSEECHHHHHHHHTTSCCSCCEEEEECCEEECGGG
T ss_pred             EEEEecChHHHHHHHHHHHHhcCCCCcccCCCchhhhhcchHHHHHhhcccccchhccccccCCCCcceEEEEEEEcCCC
Confidence            45556777754322        4889999999988888888999999974             46899999999999999


Q ss_pred             C
Q psy5595         289 V  289 (293)
Q Consensus       289 ~  289 (293)
                      |
T Consensus       336 D  336 (513)
T 3oaa_A          336 D  336 (513)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=94.63  E-value=0.012  Score=53.96  Aligned_cols=33  Identities=15%  Similarity=0.225  Sum_probs=30.2

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ||-|+.+-+|+..+|+|++|+|||||+..|+ ..
T Consensus       156 i~~L~~~l~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLEGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTTTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhccCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            6788889999999999999999999999998 54

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.62  E-value=0.022  Score=47.10  Aligned_cols=27  Identities=11%  Similarity=0.172  Sum_probs=24.2

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.++.|.|++|+||||++..++...+.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~   31 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKR   31 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            568999999999999999999988754

>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=94.57  E-value=0.021  Score=46.20  Aligned_cols=24  Identities=13%  Similarity=0.101  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+||||++..++...+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999998865

>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=94.56  E-value=0.02  Score=56.85  Aligned_cols=61  Identities=26%  Similarity=0.472  Sum_probs=49.4

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDV  289 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~  289 (293)
                      =|++--||++-..-.        ++.|.+++||...+......+||+|++..  ..||+|.++++.+++||
T Consensus       256 dVLli~Dsltr~A~A~REisl~lge~P~~~gYp~~vf~~~srLlERAg~~~~~~~~GSITal~~v~~~~~D  326 (507)
T 1fx0_A          256 HTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGD  326 (507)
T ss_dssp             EEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTC
T ss_pred             cEEEEEecHHHHHHHHHHHHHhcCCCCccccCCchHhhhhHHHHHhhhhccccCCCcceeeeeeeeccCCC
Confidence            344456777654332        48899999999998889999999999874  36999999999999998

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.52  E-value=0.022  Score=48.41  Aligned_cols=29  Identities=14%  Similarity=0.056  Sum_probs=25.7

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +..+|..++|.|++|+|||||+..|+...
T Consensus        18 ~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A           18 KTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999998754

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.52  E-value=0.024  Score=57.35  Aligned_cols=35  Identities=9%  Similarity=0.202  Sum_probs=29.7

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++.+..+.+|+..+|+|++|+|||||+..|+...
T Consensus        93 ~l~~l~~~~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B           93 KLHRLPTPRPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             eecCCCCCCCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45555568999999999999999999999988643

>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=94.48  E-value=0.015  Score=52.34  Aligned_cols=55  Identities=4%  Similarity=-0.059  Sum_probs=34.5

Q ss_pred             cccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          28 FVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        28 ~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ||..+|.+...|..+++-..-+..+..   +.. +-+.|.|++|+|||+|+.+++++..
T Consensus         1 ~~~f~~~~~~~~~~~~gR~~el~~L~~---l~~-~~v~i~G~~G~GKT~L~~~~~~~~~   55 (357)
T 2fna_A            1 GMLFDTSPKDNRKDFFDREKEIEKLKG---LRA-PITLVLGLRRTGKSSIIKIGINELN   55 (357)
T ss_dssp             CCTTCSSCCCSGGGSCCCHHHHHHHHH---TCS-SEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCHHHhcChHHHHHHHHH---hcC-CcEEEECCCCCCHHHHHHHHHHhcC
Confidence            455666666655554421111111111   122 5899999999999999999998863

>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=94.47  E-value=0.023  Score=52.50  Aligned_cols=28  Identities=14%  Similarity=0.293  Sum_probs=25.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|+.++|+|++|+|||||+..|+....
T Consensus       100 ~~g~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          100 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4799999999999999999999998764

>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=94.46  E-value=0.2  Score=46.22  Aligned_cols=30  Identities=7%  Similarity=0.011  Sum_probs=26.6

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...+|+.++|+|++|+||||++..|+....
T Consensus       100 ~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~  129 (306)
T 1vma_A          100 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFV  129 (306)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEEcCCCChHHHHHHHHHHHHH
Confidence            357889999999999999999999998764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.45  E-value=0.024  Score=47.40  Aligned_cols=27  Identities=15%  Similarity=0.075  Sum_probs=24.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|..+.|.|++|+||||++..++...+
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            467899999999999999999998764

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=94.44  E-value=0.027  Score=59.20  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..++|.|+.|+|||+|+.+++++.
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~~  171 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRDH  171 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCCH
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcCh
Confidence            457899999999999999888763

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.42  E-value=0.027  Score=47.44  Aligned_cols=29  Identities=10%  Similarity=0.076  Sum_probs=25.1

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .-+|-.+.|.|++|+||||++..++...+
T Consensus         6 ~~~~~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A            6 ARRGALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             -CCCCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999999998754

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.41  E-value=0.024  Score=52.05  Aligned_cols=26  Identities=23%  Similarity=0.385  Sum_probs=24.1

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |..++|.||+|+|||+|+..+++...
T Consensus        70 ~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           70 GRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            57899999999999999999999885

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.41  E-value=0.026  Score=47.60  Aligned_cols=28  Identities=14%  Similarity=0.287  Sum_probs=23.8

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhccc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGLV   88 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~~   88 (293)
                      .-.++|.|++|+|||||+..++...+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~   45 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYP   45 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCE
Confidence            3468999999999999999999886543

>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=94.36  E-value=0.022  Score=46.84  Aligned_cols=25  Identities=12%  Similarity=0.224  Sum_probs=22.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +|.|++|+|++|+|||+|+..++.+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999999765

>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=94.35  E-value=0.027  Score=46.57  Aligned_cols=26  Identities=12%  Similarity=0.174  Sum_probs=23.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|..+.|.|++|+||||++..++...
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999998864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.33  E-value=0.025  Score=48.06  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++|.|++|+||||++..++..-+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999988764

>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=94.32  E-value=0.025  Score=48.13  Aligned_cols=24  Identities=13%  Similarity=0.291  Sum_probs=21.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++|.|++|+||||++..++..-+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999988764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.31  E-value=0.027  Score=48.59  Aligned_cols=29  Identities=21%  Similarity=0.233  Sum_probs=23.7

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++.++.|.|++|+||||++..++...+
T Consensus         4 ~~~~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            4 SARLLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             ---CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            34678899999999999999999998764

>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=94.31  E-value=0.028  Score=46.48  Aligned_cols=28  Identities=4%  Similarity=0.001  Sum_probs=24.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++..+.|.|++|+||||++..++...+
T Consensus         3 ~~~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            3 QTPALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             SCCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3577899999999999999999998764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.30  E-value=0.024  Score=57.25  Aligned_cols=35  Identities=11%  Similarity=0.154  Sum_probs=29.6

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++.+..+.+|+.++|+|++|+|||||+..|+...
T Consensus       107 ~l~~vs~i~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          107 VLYRLPIVKDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeCCCCCCCCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45555568999999999999999999999987643

>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=94.29  E-value=0.052  Score=49.09  Aligned_cols=27  Identities=19%  Similarity=0.389  Sum_probs=20.9

Q ss_pred             CCceeeEecC-CCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSA-AGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~-~G~GKT~L~~~I~~~~~   86 (293)
                      +-.+..+++| +|+|||+++..+++..+
T Consensus        46 ~~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           46 KIPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             CCCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             CCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            3335656655 99999999999998874

>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=94.24  E-value=0.065  Score=52.65  Aligned_cols=28  Identities=18%  Similarity=0.341  Sum_probs=23.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .....++|.|++|+|||+|+..|++..+
T Consensus       236 ~~~~~vLL~GppGtGKT~lAraia~~~~  263 (489)
T 3hu3_A          236 KPPRGILLYGPPGTGKTLIARAVANETG  263 (489)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHHCS
T ss_pred             CCCCcEEEECcCCCCHHHHHHHHHHHhC
Confidence            3455699999999999999999988763

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.24  E-value=0.03  Score=46.39  Aligned_cols=28  Identities=14%  Similarity=0.236  Sum_probs=25.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++..+.|.|++|+||||++..++..-+
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4678999999999999999999998764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.22  E-value=0.019  Score=51.66  Aligned_cols=32  Identities=13%  Similarity=0.323  Sum_probs=27.6

Q ss_pred             ccccC---CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          56 NSIAR---GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        56 ~pigr---GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.+.+   |+++.|+|++|+|||||+..|+...+.
T Consensus        40 ~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~lg~   74 (250)
T 3nwj_A           40 EEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSLGY   74 (250)
T ss_dssp             HTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             hhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            34566   999999999999999999999987653

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.17  E-value=0.016  Score=57.71  Aligned_cols=62  Identities=27%  Similarity=0.439  Sum_probs=49.7

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...+......+||+|++..  ..||+|.++++.+++||-
T Consensus       268 dVLli~DslTr~A~A~REisl~lgepP~r~gYp~~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~~D~  339 (515)
T 2r9v_A          268 DALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDI  339 (515)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHTSCCCTTCCCCCCCHHHHHHHHHTTCEEBCTTTTSCEEEEEEEEEESTTCT
T ss_pred             cEEEEeccHHHHHHHHHHHhhhcCCCCCcccCChhHHHHhHHHHHHHhhccccCCCcceEEeeeeeccCCCc
Confidence            344456777654322        48899999999888888989999999874  369999999999999983

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.16  E-value=0.03  Score=46.10  Aligned_cols=26  Identities=15%  Similarity=0.235  Sum_probs=23.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-.++|.|++|+||||++..++...+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            56799999999999999999988764

>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=94.15  E-value=0.023  Score=49.93  Aligned_cols=24  Identities=13%  Similarity=0.217  Sum_probs=22.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++|.|++|+|||+|+..|++...
T Consensus        46 ~vll~G~~GtGKT~la~~la~~~~   69 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGEAH   69 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhC
Confidence            389999999999999999999875

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.13  E-value=0.031  Score=53.02  Aligned_cols=30  Identities=10%  Similarity=0.109  Sum_probs=27.3

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+|+.++|+|++|+|||||+..|+....
T Consensus       153 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          153 GFRKPAVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             CSSSSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEEcCCCChHHHHHHHHHhhcc
Confidence            578999999999999999999999998763

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.13  E-value=0.028  Score=49.26  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++|.|++|+|||+|+..|++..+
T Consensus        47 ~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECcCCCCHHHHHHHHHHHcC
Confidence            499999999999999999998874

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.12  E-value=0.013  Score=53.60  Aligned_cols=34  Identities=12%  Similarity=0.226  Sum_probs=30.0

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ||-++.+-+|+..+|+|++|+|||||+..|+...
T Consensus       160 v~~lf~~l~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLKGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhcCCeEEEECCCCCcHHHHHHHhcccc
Confidence            6777888899999999999999999999987643

>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=94.10  E-value=0.03  Score=49.65  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=24.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.|++|+|||+|+..|++..+
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999999874

>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=94.09  E-value=0.034  Score=47.58  Aligned_cols=27  Identities=7%  Similarity=0.149  Sum_probs=24.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|-++.|.|++|+||||++..++...+
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            567899999999999999999998764

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.07  E-value=0.061  Score=54.12  Aligned_cols=24  Identities=21%  Similarity=0.112  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      =.+|.||||+|||+.+.+++.+.-
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~  230 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAV  230 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999998888764

>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=94.07  E-value=0.15  Score=46.80  Aligned_cols=28  Identities=11%  Similarity=0.016  Sum_probs=24.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|..+++.|++|+||||++..++....
T Consensus        96 ~~~~vi~i~G~~G~GKTT~~~~la~~~~  123 (297)
T 1j8m_F           96 KIPYVIMLVGVQGTGKTTTAGKLAYFYK  123 (297)
T ss_dssp             SSSEEEEEECSSCSSTTHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3589999999999999999999998764

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.06  E-value=0.018  Score=57.05  Aligned_cols=62  Identities=26%  Similarity=0.447  Sum_probs=49.3

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...+......+||+|++..  ..||+|.++++.+++||-
T Consensus       255 dVLl~~Dsltr~A~A~REisl~lgepP~~~gYpg~vf~~~~rL~ERAg~~~~~~~~GSITal~~v~~~~dD~  326 (502)
T 2qe7_A          255 HALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDV  326 (502)
T ss_dssp             EEEEEEECHHHHHHHHHHHHTTTTCCCCSTTSCTTHHHHHHHHHTSCCBBCTTTTCCEEEEEEEEECSTTCC
T ss_pred             cEEEEEecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHHHHHHHhhhcccccCCCcceeEEEEEEccCCCc
Confidence            344445677654322        48899999999888888889999999874  369999999999999884

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.06  E-value=0.037  Score=46.02  Aligned_cols=30  Identities=17%  Similarity=0.220  Sum_probs=26.1

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...+|..+.|.|.+|+||||++..++....
T Consensus         9 ~~~~~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A            9 CIEKGIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CCSCCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            345788999999999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.04  E-value=0.018  Score=54.17  Aligned_cols=30  Identities=7%  Similarity=0.166  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|++..
T Consensus       170 ~~i~~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          170 RAVQLERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             HHHHTTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             HHHhcCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            457799999999999999999999998765

>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=94.03  E-value=0.033  Score=46.57  Aligned_cols=26  Identities=15%  Similarity=0.065  Sum_probs=23.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|-.+.|.|++|+||||++..++..-
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            67889999999999999999998864

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=94.02  E-value=0.036  Score=46.16  Aligned_cols=24  Identities=13%  Similarity=0.164  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++|.|++|+|||+|+..+++...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            689999999999999999998775

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.98  E-value=0.03  Score=46.02  Aligned_cols=27  Identities=19%  Similarity=0.138  Sum_probs=19.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++..+.|.|++|+||||++..++...+
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            677899999999999999999988764

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=93.97  E-value=0.026  Score=56.20  Aligned_cols=31  Identities=23%  Similarity=0.304  Sum_probs=27.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus       363 ~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          363 SFSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999999999998754

>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=93.96  E-value=0.03  Score=51.04  Aligned_cols=29  Identities=3%  Similarity=0.057  Sum_probs=24.9

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .-+++..++|.|++|+|||||+..|+++.
T Consensus        32 ~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           32 QPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             hCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            44666669999999999999999999964

>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=93.95  E-value=0.035  Score=45.90  Aligned_cols=27  Identities=15%  Similarity=0.322  Sum_probs=23.5

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.+++|.|++|+||||++..++...+.
T Consensus         2 ~~~I~l~G~~GsGKsT~a~~La~~lg~   28 (184)
T 2iyv_A            2 APKAVLVGLPGSGKSTIGRRLAKALGV   28 (184)
T ss_dssp             CCSEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            356899999999999999999987653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.95  E-value=0.028  Score=55.86  Aligned_cols=29  Identities=17%  Similarity=0.338  Sum_probs=26.0

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.+|+.++|+|++|+|||||+..|+...
T Consensus       308 ~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          308 EIKKGEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999999999998754

>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=93.92  E-value=0.04  Score=46.39  Aligned_cols=28  Identities=11%  Similarity=0.294  Sum_probs=24.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++..+.|.|++|+||||++..++...+
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456799999999999999999998764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=93.91  E-value=0.032  Score=45.44  Aligned_cols=21  Identities=14%  Similarity=0.105  Sum_probs=19.6

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .+.|.|++|+||||++..++.
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            578999999999999999998

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.90  E-value=0.034  Score=45.79  Aligned_cols=24  Identities=13%  Similarity=0.236  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|.|++|+||||++..|+...+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.90  E-value=0.037  Score=47.52  Aligned_cols=27  Identities=15%  Similarity=0.255  Sum_probs=24.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|-++.|.|++|+||||++..++...+
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            567899999999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.90  E-value=0.032  Score=46.31  Aligned_cols=29  Identities=14%  Similarity=0.251  Sum_probs=25.2

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++..++|.|++|+||||++..++...+
T Consensus         9 ~~~~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A            9 LRKCKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             HHHSCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34577899999999999999999998764

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=93.88  E-value=0.025  Score=56.41  Aligned_cols=32  Identities=22%  Similarity=0.321  Sum_probs=28.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus       362 v~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          362 INLKIPAGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            34578899999999999999999999998754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.88  E-value=0.038  Score=45.91  Aligned_cols=24  Identities=38%  Similarity=0.663  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+||||++..++...+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            589999999999999999998764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.82  E-value=0.037  Score=50.29  Aligned_cols=29  Identities=7%  Similarity=0.140  Sum_probs=25.2

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +-.+|..+.|.|++|+|||||+..++...
T Consensus        29 ~~~~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           29 AVESPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45567789999999999999999998865

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=93.81  E-value=0.034  Score=46.76  Aligned_cols=21  Identities=14%  Similarity=0.214  Sum_probs=19.9

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|.|++|+||||++..|+.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999987

>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=93.79  E-value=0.03  Score=53.37  Aligned_cols=30  Identities=10%  Similarity=0.044  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            568899999999999999999999998754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.78  E-value=0.038  Score=45.37  Aligned_cols=24  Identities=8%  Similarity=0.048  Sum_probs=21.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+||||++..++...+
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            578999999999999999998764

>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=93.76  E-value=0.032  Score=46.64  Aligned_cols=23  Identities=13%  Similarity=0.419  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|+|++|+|||+|+..++...
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            78999999999999999998764

>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=93.76  E-value=0.036  Score=46.32  Aligned_cols=23  Identities=13%  Similarity=0.419  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|+|++|+|||+|+..++...
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999998763

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=93.75  E-value=0.021  Score=54.20  Aligned_cols=34  Identities=6%  Similarity=0.129  Sum_probs=27.8

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|-+....+|+..+|+|++|+|||||+..|+...
T Consensus       206 l~~L~~~~~G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          206 LKPLEEALTGRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             HHHHHHHHTTSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             HHHHHHhcCCCEEEEECCCCccHHHHHHHHhccc
Confidence            3445556689999999999999999999887543

>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=93.73  E-value=0.038  Score=44.20  Aligned_cols=22  Identities=23%  Similarity=0.271  Sum_probs=19.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.|.|++|+||||++..+ ...
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            4789999999999999999 554

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=93.71  E-value=0.032  Score=49.33  Aligned_cols=30  Identities=13%  Similarity=0.006  Sum_probs=26.7

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..++..+.|.|++|+||||++..++...+
T Consensus        28 ~~~~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           28 SSKQPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CCSSCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             cccCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            567788999999999999999999998764

>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=93.70  E-value=0.13  Score=53.41  Aligned_cols=28  Identities=7%  Similarity=0.156  Sum_probs=24.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+...++|.|++|+|||+|+..+++...
T Consensus       189 ~~~~~vlL~G~pG~GKT~la~~la~~l~  216 (854)
T 1qvr_A          189 RTKNNPVLIGEPGVGKTAIVEGLAQRIV  216 (854)
T ss_dssp             SSCCCCEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence            4556799999999999999999998863

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.61  E-value=0.041  Score=48.91  Aligned_cols=32  Identities=16%  Similarity=0.181  Sum_probs=25.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGKS   94 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~   94 (293)
                      -+.|.|++|+|||||+..++...+...+..|.
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            36899999999999999999887644444444

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.58  E-value=0.029  Score=56.23  Aligned_cols=30  Identities=23%  Similarity=0.306  Sum_probs=27.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|++++|+|++|+|||||+..|++-.
T Consensus       376 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          376 FHIKPGQKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EECCTTCEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            568899999999999999999999988754

>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=93.57  E-value=0.039  Score=52.18  Aligned_cols=28  Identities=11%  Similarity=0.018  Sum_probs=25.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+|+.++|.|++|+|||||+..|++..
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            6789999999999999999999998865

>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=93.57  E-value=0.047  Score=46.55  Aligned_cols=28  Identities=18%  Similarity=0.166  Sum_probs=25.4

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+|..+.|.|++|+||||++..++...
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999999998865

>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=93.56  E-value=0.05  Score=47.22  Aligned_cols=27  Identities=11%  Similarity=0.287  Sum_probs=24.0

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.++.|.|++|+||||++..|+..-+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999998764

>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=93.55  E-value=0.037  Score=48.12  Aligned_cols=24  Identities=13%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|+||||+||+|++..|+..-+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999998775

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=93.53  E-value=0.02  Score=56.94  Aligned_cols=62  Identities=24%  Similarity=0.449  Sum_probs=49.5

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhcccccc--CCccccccceeecCCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDVG  290 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~--~~Gs~~~~~~~~~~~~~~  290 (293)
                      =|++--||++-..-.        ++.|.+++||...+......+||+|++..  ..||+|.++++.+++||-
T Consensus       263 dVLli~Dsltr~A~A~REisl~lgepP~r~gYpg~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~dD~  334 (510)
T 2ck3_A          263 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDV  334 (510)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCEEBCGGGTSCEEEEEEEEECSTTCT
T ss_pred             cEEEEEcCHHHHHHHHHHHHHhcCCCCccCCcCchHHHhhHHHHHhhhcccccCCCcceeEeeeeccCCCCc
Confidence            344456777754332        48899999999888888889999999864  469999999999999984

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.52  E-value=0.051  Score=45.62  Aligned_cols=28  Identities=7%  Similarity=0.149  Sum_probs=23.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+...++|.|++|+||||++..+++.-+
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~g   40 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   40 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4455789999999999999999998754

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.49  E-value=0.037  Score=55.90  Aligned_cols=29  Identities=17%  Similarity=0.336  Sum_probs=26.0

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+.+|+.++|+|++|+|||||+..|+...
T Consensus       378 ~v~~Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          378 EIRKGEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            36799999999999999999999998753

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=93.48  E-value=0.028  Score=51.07  Aligned_cols=28  Identities=14%  Similarity=0.246  Sum_probs=24.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..|..++|.|+||+|||+|+..|++..+
T Consensus        44 ~~~~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           44 CTGGHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             HHTCCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             HcCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            3478999999999999999999998764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=93.47  E-value=0.024  Score=50.89  Aligned_cols=25  Identities=0%  Similarity=-0.035  Sum_probs=22.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+-+.|.|++|+|||+|+.+++++.
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~   55 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER   55 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc
Confidence            5899999999999999999998774

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.45  E-value=0.032  Score=55.48  Aligned_cols=30  Identities=17%  Similarity=0.304  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus       289 ~~i~~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          289 GEAKEGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ceECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            357899999999999999999999998654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=93.42  E-value=0.13  Score=49.79  Aligned_cols=28  Identities=14%  Similarity=0.183  Sum_probs=24.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+...++|+|+||+|||+|+..|++...
T Consensus       199 ~~~~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             cCCCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            4567899999999999999999999863

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=93.39  E-value=0.047  Score=46.78  Aligned_cols=27  Identities=15%  Similarity=-0.013  Sum_probs=24.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++..+.|.|++|+||||++..++..-+
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            556899999999999999999998764

>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=93.37  E-value=0.052  Score=44.77  Aligned_cols=31  Identities=23%  Similarity=0.248  Sum_probs=25.2

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .-+.+.+| ..+|+|++|+|||+|+..|..-.
T Consensus        20 ~~~~~~~g-~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           20 VVIPFSKG-FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEECCSS-EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             EEEecCCC-cEEEECCCCCCHHHHHHHHHHHH
Confidence            33456677 88999999999999999987654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.30  E-value=0.044  Score=43.24  Aligned_cols=23  Identities=9%  Similarity=0.257  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999988653

>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=93.28  E-value=0.046  Score=43.07  Aligned_cols=23  Identities=13%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999888754

>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=93.26  E-value=0.044  Score=43.45  Aligned_cols=23  Identities=9%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999998753

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=93.25  E-value=0.046  Score=46.07  Aligned_cols=21  Identities=14%  Similarity=0.140  Sum_probs=19.3

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .++|.|++|+||||++..++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999976

>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=93.23  E-value=0.21  Score=48.05  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=23.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ...++|.||+|+|||+|+..|++..
T Consensus       167 ~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          167 WRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999999987

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=93.22  E-value=0.023  Score=56.63  Aligned_cols=31  Identities=19%  Similarity=0.220  Sum_probs=27.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+.++|+|++|+|||||+..|++-.
T Consensus       361 sl~i~~G~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          361 NLSIEKGETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEECCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            3678999999999999999999999887654

>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=93.19  E-value=0.061  Score=47.15  Aligned_cols=30  Identities=13%  Similarity=0.077  Sum_probs=26.9

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...+|..+.|.|++|+||||++..|+..-.
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            466899999999999999999999998763

>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=93.18  E-value=0.049  Score=44.06  Aligned_cols=23  Identities=9%  Similarity=0.208  Sum_probs=20.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+++|+|++|+|||+|+..++..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            37899999999999999998754

>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=93.18  E-value=0.055  Score=47.62  Aligned_cols=28  Identities=7%  Similarity=0.073  Sum_probs=24.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++-+++|+|++|+||||++..++..-+
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3566899999999999999999998764

>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=93.16  E-value=0.05  Score=53.91  Aligned_cols=30  Identities=17%  Similarity=0.348  Sum_probs=26.4

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .-.+|..++|+||+|+|||+|+..|++...
T Consensus       104 ~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A          104 KSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             SSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            333799999999999999999999998764

>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=93.14  E-value=0.022  Score=53.06  Aligned_cols=30  Identities=17%  Similarity=0.247  Sum_probs=26.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus       166 ~~i~~g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          166 DGIAIGKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             HHHHHTCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             hhccCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456789999999999999999999998765

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=93.14  E-value=0.047  Score=58.26  Aligned_cols=30  Identities=13%  Similarity=0.223  Sum_probs=27.2

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .=+.+.+|++++|+|++|+|||||+..|+.
T Consensus       454 vsl~I~~Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          454 TQLRLKRARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            445789999999999999999999999985

>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=93.14  E-value=0.058  Score=42.78  Aligned_cols=23  Identities=9%  Similarity=0.053  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            68999999999999999998764

>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=93.12  E-value=0.048  Score=42.83  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..+..+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            78999999999999999998654

>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=93.09  E-value=0.034  Score=48.37  Aligned_cols=28  Identities=7%  Similarity=-0.047  Sum_probs=25.1

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +..+|..++|.|+.|+|||||+..|+..
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            5578999999999999999999988765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=93.08  E-value=0.046  Score=53.99  Aligned_cols=27  Identities=19%  Similarity=0.454  Sum_probs=23.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+|  ++|+||+|+|||+|+..|+....
T Consensus        63 ip~G--vLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           63 IPKG--VLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CCSE--EEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CCce--EEEECCCCCCHHHHHHHHHHHhC
Confidence            4455  99999999999999999998765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.08  E-value=0.049  Score=52.93  Aligned_cols=29  Identities=17%  Similarity=0.302  Sum_probs=25.5

Q ss_pred             ccccCCce--eeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQK--IPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr--~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.+.+|+.  ++|+|++|+|||||+..|+..
T Consensus        35 l~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           35 KSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             eEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            67889999  999999999999999998764

>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=93.07  E-value=0.088  Score=46.20  Aligned_cols=27  Identities=15%  Similarity=0.192  Sum_probs=23.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.|++|+|||+|+..|++...
T Consensus        28 ~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A           28 LDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             SCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            357899999999999999999988763

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.07  E-value=0.066  Score=46.53  Aligned_cols=28  Identities=21%  Similarity=0.253  Sum_probs=24.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|.+++|.|++|+||||++..++...+
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4678999999999999999999998654

>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=92.99  E-value=0.045  Score=45.12  Aligned_cols=21  Identities=19%  Similarity=0.335  Sum_probs=19.4

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |+.|+|++|+|||+|+..++.
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            789999999999999998875

>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=92.99  E-value=0.059  Score=49.93  Aligned_cols=27  Identities=15%  Similarity=0.217  Sum_probs=23.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..++|.||||+|||+++..|++..+
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            356799999999999999999998874

>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=92.98  E-value=0.062  Score=51.77  Aligned_cols=27  Identities=19%  Similarity=0.385  Sum_probs=24.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+..+++.||||+|||+|+..|++..+
T Consensus        62 ~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           62 AGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            346799999999999999999999875

>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=92.96  E-value=0.41  Score=43.58  Aligned_cols=27  Identities=11%  Similarity=-0.006  Sum_probs=24.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|+.++|.|++|+||||++..++....
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~  123 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            899999999999999999999998764

>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=92.96  E-value=0.054  Score=42.72  Aligned_cols=23  Identities=13%  Similarity=0.301  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            78999999999999999988654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=92.96  E-value=0.065  Score=43.35  Aligned_cols=24  Identities=8%  Similarity=0.149  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|.|++|+||||++..++...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999998764

>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=92.95  E-value=0.062  Score=43.61  Aligned_cols=26  Identities=19%  Similarity=0.342  Sum_probs=22.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ..+.|.|++|+||||++..++...+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~   28 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGY   28 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            36899999999999999999987653

>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=92.95  E-value=0.054  Score=42.92  Aligned_cols=23  Identities=13%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999988654

>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=92.93  E-value=0.06  Score=49.25  Aligned_cols=29  Identities=14%  Similarity=-0.110  Sum_probs=25.1

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.++..++|.|++|+|||||+..|+....
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            46788999999999999999998887653

>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=92.92  E-value=0.39  Score=46.46  Aligned_cols=27  Identities=11%  Similarity=-0.006  Sum_probs=24.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|+.++|.|++|+||||++..++....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~  123 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            789999999999999999999998764

>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=92.91  E-value=0.056  Score=43.06  Aligned_cols=23  Identities=9%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.91  E-value=0.032  Score=55.86  Aligned_cols=31  Identities=16%  Similarity=0.223  Sum_probs=27.6

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|++++|+|++|+|||||+..|++-.
T Consensus       363 sl~i~~Ge~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          363 NFSVKPGSLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEECTTCEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3678999999999999999999999887754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.88  E-value=0.055  Score=47.93  Aligned_cols=28  Identities=4%  Similarity=-0.022  Sum_probs=23.8

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+...++|.||||+|||+++..|++..
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3454569999999999999999998876

>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=92.85  E-value=0.06  Score=43.06  Aligned_cols=22  Identities=9%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            7899999999999999988654

>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=92.85  E-value=0.061  Score=45.86  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|.|++|+||||++..++...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999998764

>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=92.71  E-value=0.06  Score=42.63  Aligned_cols=23  Identities=13%  Similarity=0.385  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988753

>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=92.70  E-value=0.058  Score=42.86  Aligned_cols=23  Identities=13%  Similarity=0.296  Sum_probs=20.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            68999999999999999988643

>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=92.69  E-value=0.081  Score=46.93  Aligned_cols=27  Identities=11%  Similarity=0.111  Sum_probs=23.1

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++...++|.|++|+|||+++..+++..
T Consensus        36 ~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           36 KNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             TCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            444469999999999999999999875

>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=92.68  E-value=0.062  Score=43.17  Aligned_cols=23  Identities=9%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.68  E-value=0.063  Score=43.77  Aligned_cols=23  Identities=9%  Similarity=0.208  Sum_probs=20.6

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+++|+|++|+|||+|+..++..
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            37999999999999999999764

>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=92.67  E-value=0.062  Score=42.55  Aligned_cols=23  Identities=4%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988753

>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=92.66  E-value=0.073  Score=43.63  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=22.7

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.|++|+||||++..++...+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999988764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=92.65  E-value=0.064  Score=47.83  Aligned_cols=25  Identities=12%  Similarity=0.198  Sum_probs=22.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++|.|++|+|||+|+..|++...
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHHc
Confidence            5799999999999999999999864

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=92.63  E-value=0.074  Score=43.73  Aligned_cols=23  Identities=13%  Similarity=0.059  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++|.|++|+||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999865

>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=92.62  E-value=0.065  Score=42.55  Aligned_cols=23  Identities=13%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
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            78999999999999999988764

>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=92.61  E-value=0.071  Score=49.54  Aligned_cols=26  Identities=12%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.|++|+|||+|+..|++..+
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999998874

>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=92.60  E-value=0.073  Score=47.42  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.+.|.|++|+|||||+..|+...+
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999998764

>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=92.60  E-value=0.063  Score=52.71  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=22.1

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++|.||+|+|||+|+..|++..+.
T Consensus        52 vLL~GppGtGKT~Laraia~~~~~   75 (476)
T 2ce7_A           52 ILLVGPPGTGKTLLARAVAGEANV   75 (476)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            999999999999999999998753

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.60  E-value=0.064  Score=48.42  Aligned_cols=23  Identities=13%  Similarity=0.358  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|+|++|+|||||+..|+...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998765

>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=92.58  E-value=0.066  Score=50.52  Aligned_cols=29  Identities=7%  Similarity=-0.030  Sum_probs=24.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+|+.++|.||+|+|||||+..|+....
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhccc
Confidence            45788999999999999999998877553

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=92.57  E-value=0.021  Score=46.06  Aligned_cols=26  Identities=19%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+..++|.|++|+|||+++..|++..
T Consensus        26 ~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A           26 RTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             CSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CCCcEEEECCCCccHHHHHHHHHHhC
Confidence            45679999999999999988776543

>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=92.52  E-value=0.067  Score=42.96  Aligned_cols=23  Identities=13%  Similarity=0.319  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            78999999999999999888754

>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=92.51  E-value=0.079  Score=44.06  Aligned_cols=25  Identities=20%  Similarity=0.093  Sum_probs=22.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +...++|.|++|+||||++..++..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3457899999999999999999886

>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=92.49  E-value=0.066  Score=43.40  Aligned_cols=23  Identities=13%  Similarity=0.174  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999988754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=92.49  E-value=0.074  Score=46.82  Aligned_cols=29  Identities=10%  Similarity=0.230  Sum_probs=23.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .+.--+.|+||||+||+|++..|+..-+.
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g~   55 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFHF   55 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHCC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHCC
Confidence            34445678999999999999999988753

>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=92.49  E-value=0.066  Score=42.97  Aligned_cols=24  Identities=13%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            379999999999999999998764

>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=92.48  E-value=0.17  Score=52.97  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+++.||||+|||+|+..||+..+
T Consensus       240 GILL~GPPGTGKT~LAraiA~elg  263 (806)
T 3cf2_A          240 GILLYGPPGTGKTLIARAVANETG  263 (806)
T ss_dssp             EEEEECCTTSCHHHHHHHHHTTTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999998875

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=92.47  E-value=0.086  Score=44.68  Aligned_cols=26  Identities=8%  Similarity=-0.114  Sum_probs=22.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|+-..|.|++|+||||++.+++++.
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHH
Confidence            47788999999999999998888776

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.47  E-value=0.068  Score=43.90  Aligned_cols=25  Identities=8%  Similarity=0.072  Sum_probs=21.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -=+++|+|++|+|||+|+..+..+.
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3489999999999999999998764

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=92.46  E-value=0.08  Score=50.76  Aligned_cols=28  Identities=11%  Similarity=0.100  Sum_probs=25.5

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+.+|.+++|+|++|+|||||+.+|...
T Consensus        16 ~v~~g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           16 RPGNNLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             SSSSCCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4678999999999999999999999873

>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=92.45  E-value=0.048  Score=49.41  Aligned_cols=26  Identities=8%  Similarity=0.075  Sum_probs=23.1

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..++|.|++|+|||+|+..|++...
T Consensus        45 ~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           45 IGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CceEEEECCCCccHHHHHHHHHHhCc
Confidence            44599999999999999999999764

>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=92.44  E-value=0.078  Score=47.94  Aligned_cols=25  Identities=4%  Similarity=0.154  Sum_probs=22.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++|.|++|+|||+|+..+++...
T Consensus        59 ~~~ll~G~~G~GKT~la~~la~~l~   83 (353)
T 1sxj_D           59 PHMLFYGPPGTGKTSTILALTKELY   83 (353)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5599999999999999999998753

>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=92.42  E-value=0.073  Score=42.40  Aligned_cols=21  Identities=14%  Similarity=0.322  Sum_probs=19.1

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |++|+|++|+|||+|+..+..
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            789999999999999998864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.40  E-value=0.068  Score=42.96  Aligned_cols=23  Identities=9%  Similarity=0.235  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         8 ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEECcCCCCHHHHHHHHHhCc
Confidence            78999999999999999887653

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.39  E-value=0.06  Score=53.55  Aligned_cols=30  Identities=3%  Similarity=0.144  Sum_probs=25.9

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -...+|+..+|+|++|+|||||+..|+...
T Consensus        20 ~~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           20 PTPKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             CCCCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            345799999999999999999999988643

>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=92.38  E-value=0.071  Score=43.19  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999998654

>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=92.37  E-value=0.08  Score=48.47  Aligned_cols=29  Identities=14%  Similarity=0.190  Sum_probs=25.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+|+.++|+|++|+||||++..|+....
T Consensus       102 ~~~g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          102 PIHSKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             CCCSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35799999999999999999999998764

>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=92.35  E-value=0.072  Score=42.43  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=22.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.=|++|+|++|+|||+|+..+..+.
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            44589999999999999999987653

>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=92.31  E-value=0.073  Score=42.62  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        17 ~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           17 KYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999998754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.30  E-value=0.08  Score=42.00  Aligned_cols=23  Identities=13%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =|++|+|++|+|||+|+..+..+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            37899999999999999998764

>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=92.25  E-value=0.086  Score=46.74  Aligned_cols=26  Identities=8%  Similarity=0.115  Sum_probs=22.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .++..+.|.|.+|+||||++..++..
T Consensus         2 ~~~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            2 GDIMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            35667999999999999999999986

>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=92.22  E-value=0.073  Score=42.28  Aligned_cols=20  Identities=20%  Similarity=0.366  Sum_probs=18.4

Q ss_pred             eeeEecCCCCChhHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~   82 (293)
                      |++|+|++|+|||+|+..+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~   23 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFG   23 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            78999999999999998775

>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=92.20  E-value=0.077  Score=43.94  Aligned_cols=23  Identities=9%  Similarity=0.099  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999887754

>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=92.20  E-value=0.074  Score=42.58  Aligned_cols=23  Identities=4%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            79999999999999999988653

>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=92.19  E-value=0.075  Score=44.16  Aligned_cols=26  Identities=4%  Similarity=0.065  Sum_probs=21.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.-|++|+|++|+|||+|+..+..+.
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            44599999999999999999998753

>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=92.18  E-value=0.072  Score=48.80  Aligned_cols=55  Identities=9%  Similarity=0.162  Sum_probs=33.5

Q ss_pred             CCccccCCCCccccCCCc-eeeeeccc-ccCCce--eeEecCCCCChhHHHHHHHHHhc
Q psy5595          32 EGERSFTPRDLIGDSSGK-RAIDVMNS-IARGQK--IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        32 ~p~~r~~p~e~l~~~TGi-raID~l~p-igrGQr--~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||.+++.-.-+.+..|- .+++.|.- +-.|+-  .++.||+|+|||+++..+++...
T Consensus        13 ~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           13 LPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             CCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            377765433323222231 23333322 334433  89999999999999999999863

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.16  E-value=0.078  Score=43.09  Aligned_cols=23  Identities=9%  Similarity=0.296  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+....
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            79999999999999999998764

>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=92.15  E-value=0.084  Score=45.36  Aligned_cols=22  Identities=14%  Similarity=0.212  Sum_probs=19.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.||+|+|||||+..+..+-
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            5789999999999999987764

>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=92.12  E-value=0.47  Score=41.40  Aligned_cols=28  Identities=11%  Similarity=0.032  Sum_probs=23.8

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +-++.+.+|.++.|+|||.++..++.+.
T Consensus       105 ~~~~~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          105 WLVDKRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             HTTTSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             HHhCCCEEEEeCCCCCHHHHHHHHHHHc
Confidence            3456789999999999999999888765

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=92.08  E-value=0.051  Score=53.76  Aligned_cols=30  Identities=7%  Similarity=-0.070  Sum_probs=26.2

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus       255 ~~v~~g~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          255 LAIEHKFSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             HHHHTTCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             HHHhCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            345789999999999999999999988765

>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=92.08  E-value=0.079  Score=43.36  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|.+|+|||+|+..+..+.
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            79999999999999999998754

>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=92.05  E-value=0.083  Score=42.58  Aligned_cols=23  Identities=9%  Similarity=0.325  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999988653

>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=92.02  E-value=0.082  Score=42.63  Aligned_cols=23  Identities=13%  Similarity=0.301  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        20 ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           20 KVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            79999999999999999988654

>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=92.01  E-value=0.079  Score=43.00  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        12 ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           12 KFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>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=92.01  E-value=0.082  Score=42.88  Aligned_cols=23  Identities=13%  Similarity=0.349  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        20 ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           20 KLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            67999999999999999988653

>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=92.00  E-value=0.083  Score=42.68  Aligned_cols=23  Identities=9%  Similarity=0.083  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>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=92.00  E-value=0.061  Score=43.47  Aligned_cols=23  Identities=4%  Similarity=0.156  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         9 ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999988754

>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=92.00  E-value=0.11  Score=46.31  Aligned_cols=27  Identities=11%  Similarity=0.174  Sum_probs=23.5

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++...++|.|++|+|||+++..+++..
T Consensus        44 ~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           44 GSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            444469999999999999999999886

>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=91.99  E-value=0.094  Score=43.23  Aligned_cols=23  Identities=9%  Similarity=0.173  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
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            78999999999999999988765

>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=91.98  E-value=0.083  Score=43.46  Aligned_cols=23  Identities=13%  Similarity=0.417  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999988754

>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=91.96  E-value=0.08  Score=43.38  Aligned_cols=23  Identities=9%  Similarity=0.172  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         9 ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999998754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=91.94  E-value=0.052  Score=59.43  Aligned_cols=32  Identities=19%  Similarity=0.288  Sum_probs=28.4

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.|-+||+++|+|++|+|||||+..|.+-.
T Consensus      1098 isl~I~~Ge~vaIVG~SGsGKSTL~~lL~rl~ 1129 (1321)
T 4f4c_A         1098 LSFSVEPGQTLALVGPSGCGKSTVVALLERFY 1129 (1321)
T ss_dssp             EEEEECTTCEEEEECSTTSSTTSHHHHHTTSS
T ss_pred             eeEEECCCCEEEEECCCCChHHHHHHHHhcCc
Confidence            33678999999999999999999999998854

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=91.90  E-value=0.072  Score=47.54  Aligned_cols=26  Identities=19%  Similarity=0.288  Sum_probs=23.1

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      -|.+|+|+||+||||++..|+..-+.
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g~   34 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFGI   34 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhCC
Confidence            47899999999999999999987753

>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=91.90  E-value=0.087  Score=42.50  Aligned_cols=24  Identities=4%  Similarity=-0.022  Sum_probs=21.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            479999999999999999888654

>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=91.88  E-value=0.088  Score=42.39  Aligned_cols=23  Identities=13%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            78999999999999999987754

>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=91.87  E-value=0.084  Score=44.38  Aligned_cols=24  Identities=8%  Similarity=0.088  Sum_probs=21.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -+++|+|++|+|||+|+..+..+.
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998765

>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=91.85  E-value=0.061  Score=51.93  Aligned_cols=21  Identities=5%  Similarity=0.164  Sum_probs=20.3

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .++|+|++|+|||||+..|+.
T Consensus        71 ~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            999999999999999999987

>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=91.80  E-value=0.09  Score=43.46  Aligned_cols=23  Identities=9%  Similarity=0.286  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC
Confidence            78999999999999999888754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.79  E-value=0.1  Score=44.96  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=21.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|.|++|+||||++..++...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999988763

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=91.78  E-value=0.053  Score=54.88  Aligned_cols=28  Identities=11%  Similarity=0.216  Sum_probs=24.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~   82 (293)
                      =+.|.+|+.++|+|++|+|||||+..|.
T Consensus       342 sl~I~~Ge~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          342 SVKIPLGTFVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             EEEEETTSEEEEECSTTSSHHHHHTTTH
T ss_pred             eeEecCCCEEEEEeeCCCCHHHHHHHHH
Confidence            3678899999999999999999997554

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=91.73  E-value=0.08  Score=52.96  Aligned_cols=30  Identities=3%  Similarity=0.145  Sum_probs=26.5

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+..|+.++|.|++|+|||+|+..|++...
T Consensus        56 ~i~~g~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           56 AANQKRHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             HHHTTCCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cccCCCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            456789999999999999999999998663

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.70  E-value=0.092  Score=42.97  Aligned_cols=23  Identities=9%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        18 ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            79999999999999999998754

>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=91.67  E-value=0.093  Score=43.07  Aligned_cols=23  Identities=4%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        24 ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           24 KLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999998764

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=91.65  E-value=0.073  Score=53.85  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=22.2

Q ss_pred             cccccCCceeeEecCCCCChhHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIA   78 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~   78 (293)
                      =+.+.+|+.++|+|++|+|||||+
T Consensus        38 sl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           38 DVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             EEEEETTSEEEEECSTTSSHHHHH
T ss_pred             EEEECCCCEEEEECCCCCCHHHHh
Confidence            367889999999999999999997

>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=91.64  E-value=0.09  Score=42.73  Aligned_cols=23  Identities=4%  Similarity=0.101  Sum_probs=20.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            68999999999999999887643

>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=91.64  E-value=0.1  Score=48.38  Aligned_cols=30  Identities=3%  Similarity=-0.002  Sum_probs=26.6

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ....+|..++|.|++|+|||||+..++...
T Consensus        51 ~~~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           51 PYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             GGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999999998654

>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=91.62  E-value=0.11  Score=43.33  Aligned_cols=22  Identities=9%  Similarity=0.277  Sum_probs=20.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..++..
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7999999999999999988864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.62  E-value=0.1  Score=41.87  Aligned_cols=22  Identities=14%  Similarity=0.338  Sum_probs=19.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7899999999999999988653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=91.61  E-value=0.065  Score=52.90  Aligned_cols=29  Identities=14%  Similarity=0.235  Sum_probs=25.2

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..|..++|.|+||+|||+|+..|++...
T Consensus        38 l~~~~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           38 ALSGESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             HHHTCEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             HhcCCeeEeecCchHHHHHHHHHHHHHHh
Confidence            34578999999999999999999988763

>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=91.58  E-value=0.088  Score=46.39  Aligned_cols=27  Identities=19%  Similarity=0.318  Sum_probs=23.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..|..++|.|++|+|||+|+.+++..-
T Consensus        32 ~~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           32 IYGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             ETTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             ECCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            357889999999999999999998764

>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=91.57  E-value=0.095  Score=42.41  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         8 ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            8 KIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>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=91.55  E-value=0.097  Score=43.19  Aligned_cols=23  Identities=13%  Similarity=0.301  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|+|++|+|||+|+..+..+.
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999987654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.53  E-value=0.073  Score=43.35  Aligned_cols=23  Identities=0%  Similarity=0.196  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           25 EVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCc
Confidence            79999999999999999987653

>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=91.47  E-value=0.1  Score=43.19  Aligned_cols=23  Identities=17%  Similarity=0.352  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A           10 KVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999988754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=91.45  E-value=0.2  Score=44.66  Aligned_cols=27  Identities=22%  Similarity=0.217  Sum_probs=22.7

Q ss_pred             CCc-eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQ-KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQ-r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|. ++.+.|++|+||||++..++....
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~   31 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQL   31 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            444 578889999999999999998875

>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=91.44  E-value=0.1  Score=42.78  Aligned_cols=23  Identities=13%  Similarity=0.314  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999988654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=91.41  E-value=0.12  Score=41.42  Aligned_cols=26  Identities=12%  Similarity=0.143  Sum_probs=22.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+.-+++|+|++|+|||+|+..+..+
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35668999999999999999998764

>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=91.39  E-value=0.1  Score=42.94  Aligned_cols=23  Identities=4%  Similarity=0.027  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999998654

>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=91.37  E-value=0.11  Score=42.23  Aligned_cols=22  Identities=14%  Similarity=0.027  Sum_probs=18.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+...
T Consensus        16 ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            7899999999999999665543

>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=91.36  E-value=0.1  Score=42.95  Aligned_cols=23  Identities=9%  Similarity=0.161  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            79999999999999999998764

>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=91.33  E-value=0.1  Score=43.14  Aligned_cols=23  Identities=13%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999988754

>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=91.32  E-value=0.11  Score=50.11  Aligned_cols=34  Identities=6%  Similarity=-0.085  Sum_probs=27.7

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++-++ ..+|+.++|.||.|+|||||+..|+....
T Consensus       159 L~~l~-~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          159 FRRLI-KRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             HHHHH-TSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHH-HhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            44343 36899999999999999999999988764

>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=91.32  E-value=0.077  Score=43.52  Aligned_cols=24  Identities=4%  Similarity=0.116  Sum_probs=21.1

Q ss_pred             CceeeEecCCCCChhHHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      --+++|+|++|+|||+|+..+..+
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            457999999999999999988764

>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=91.32  E-value=0.11  Score=42.42  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        17 ~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           17 KILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            79999999999999999998754

>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=91.30  E-value=0.12  Score=50.84  Aligned_cols=30  Identities=7%  Similarity=-0.004  Sum_probs=26.0

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+ +.++|+|++|+|||||+..|+.-.
T Consensus        24 sl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           24 TFDFDE-LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             EEECCS-SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEcc-ceEEEECCCCCcHHHHHHHHhcCC
Confidence            356778 999999999999999999988754

>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=91.29  E-value=0.11  Score=42.85  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999988654

>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=91.29  E-value=0.11  Score=43.00  Aligned_cols=39  Identities=15%  Similarity=0.285  Sum_probs=22.7

Q ss_pred             CCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          46 SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        46 ~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -||-..+..+.+ -+-=|++|+|++|+|||+|+..+..+.
T Consensus        14 ~~~~~~~~~~~~-~~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           14 GTENLYFQSMAK-SAEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             --------------CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CccccchhccCC-CCceEEEEECCCCCCHHHHHHHHHhCC
Confidence            456666666654 345689999999999999999988754

>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=91.27  E-value=0.13  Score=45.22  Aligned_cols=25  Identities=16%  Similarity=0.199  Sum_probs=22.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.++|.|++|+||||++..++...+
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3689999999999999999998755

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=91.21  E-value=0.12  Score=43.68  Aligned_cols=26  Identities=8%  Similarity=0.056  Sum_probs=22.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      --++.|+|.+|+|||+|+..++.+..
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            35889999999999999999998763

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.20  E-value=0.059  Score=45.54  Aligned_cols=25  Identities=4%  Similarity=0.053  Sum_probs=22.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++|.|++|+|||||+..|++...
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            5789999999999999999988753

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=91.20  E-value=0.06  Score=57.43  Aligned_cols=33  Identities=9%  Similarity=0.202  Sum_probs=28.6

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.+.+|++++|+|++|+|||||+..|+...
T Consensus       691 dVSl~I~~GeivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          691 DINFQCSLSSRIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             EEEEEEETTCEEEECSCCCHHHHHHHHHHTTSS
T ss_pred             ccEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            445678999999999999999999999997643

>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=91.16  E-value=0.14  Score=42.69  Aligned_cols=24  Identities=13%  Similarity=0.217  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++|.|++|+||||++..++..-+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            689999999999999999998764

>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=91.16  E-value=0.11  Score=43.49  Aligned_cols=24  Identities=0%  Similarity=-0.006  Sum_probs=21.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -|++|+|++|+|||+|+..+..+.
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998764

>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=91.06  E-value=0.14  Score=43.46  Aligned_cols=24  Identities=8%  Similarity=0.108  Sum_probs=21.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      ++-.++|.|++|+||||++..++.
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999999976

>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=91.03  E-value=0.15  Score=49.97  Aligned_cols=26  Identities=12%  Similarity=0.281  Sum_probs=23.7

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++|.||+|+|||+|+..+++..+
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l~  102 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQELG  102 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999999875

>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=90.99  E-value=0.12  Score=43.03  Aligned_cols=24  Identities=17%  Similarity=0.382  Sum_probs=21.1

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            388999999999999999987653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=90.97  E-value=0.66  Score=44.77  Aligned_cols=28  Identities=4%  Similarity=-0.038  Sum_probs=23.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +...+.+.|..|+||||++..++....+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~  126 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLRE  126 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4567889999999999999999987753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=90.96  E-value=0.12  Score=43.12  Aligned_cols=26  Identities=19%  Similarity=0.224  Sum_probs=22.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +-=|++|+|++|+|||+|+..+..+.
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34489999999999999999998754

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=90.92  E-value=0.14  Score=48.58  Aligned_cols=29  Identities=17%  Similarity=0.417  Sum_probs=25.0

Q ss_pred             ccCCce--eeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQK--IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr--~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..|++  +.|+|++|+|||||+..|+...+
T Consensus        19 i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           19 IEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             TTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             hccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            456777  99999999999999999988764

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=90.90  E-value=0.045  Score=53.11  Aligned_cols=58  Identities=21%  Similarity=0.201  Sum_probs=45.0

Q ss_pred             EEecCCCccccc--------cccccCCCCCCCCcccccccchhhhccccccCCccccccceeecC-CCC
Q psy5595         230 LTMPNDDFKVSA--------AREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMP-NDV  289 (293)
Q Consensus       230 v~~~~~d~~dpi--------~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~-~~~  289 (293)
                      |++--||++-..        +-++++. ++||+..++.+..+|+|++++. ..||+|+++++.++ ++|
T Consensus       263 VLil~DslTR~A~A~revs~~~Ge~ps-~Gyp~~~~~~~~rl~erA~~~~-~~GSIT~i~tvlv~tgdd  329 (422)
T 3ice_A          263 VIILLDSITRLARAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVE-EGGSLTIIATALIDTGSK  329 (422)
T ss_dssp             EEEEEECHHHHHHHHHHHSCCSSCBCS-SSCBHHHHHHHHHHHTTCEEES-SSCEEEEEEEECCSSSCH
T ss_pred             EEEEEeCchHHHHHHHHHHHhcCCCCC-CCcCHHHHhhhHHHHHhccccC-CCcceeEEEEEEecCCCc
Confidence            344456766432        2347776 8999999999999999999975 59999999999999 543

>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=90.88  E-value=0.15  Score=45.25  Aligned_cols=27  Identities=7%  Similarity=0.090  Sum_probs=23.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++...++|.|++|+|||+++..+++..
T Consensus        40 ~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           40 GNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            343459999999999999999999885

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=90.84  E-value=0.13  Score=52.05  Aligned_cols=30  Identities=7%  Similarity=0.206  Sum_probs=25.0

Q ss_pred             ccccCC-----ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARG-----QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrG-----Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+.+|     +.++|+|++|+|||||+..|+.-.
T Consensus       368 l~v~~G~~~~GEiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          368 LNVEEGEFSDSEILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEECCEECCTTCEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEecCccccceEEEEECCCCCcHHHHHHHHhcCC
Confidence            455555     889999999999999999998654

>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=90.82  E-value=0.14  Score=41.94  Aligned_cols=25  Identities=12%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .-|++|+|++|+|||+|+..+..+.
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            3489999999999999999998753

>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=90.81  E-value=0.15  Score=43.74  Aligned_cols=25  Identities=12%  Similarity=0.173  Sum_probs=21.9

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.++|.|++|+||||++..++...+
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg   37 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYG   37 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3689999999999999999988753

>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=90.80  E-value=0.13  Score=42.35  Aligned_cols=23  Identities=9%  Similarity=0.109  Sum_probs=21.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        20 ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999998764

>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=90.78  E-value=0.12  Score=42.99  Aligned_cols=23  Identities=9%  Similarity=0.265  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999988754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=90.77  E-value=0.12  Score=48.06  Aligned_cols=24  Identities=8%  Similarity=0.018  Sum_probs=21.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++|.|++|+|||||+..|.....
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            589999999999999999887653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=90.76  E-value=0.09  Score=52.57  Aligned_cols=30  Identities=10%  Similarity=0.109  Sum_probs=27.2

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+-+|+.+.|+|++|+|||||+..|+....
T Consensus       365 ~~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          365 RERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             GGGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ccccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            477999999999999999999999998764

>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=90.74  E-value=0.093  Score=42.86  Aligned_cols=23  Identities=17%  Similarity=0.146  Sum_probs=20.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =|++|+|++|+|||+|+..+..+
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            37899999999999999998764

>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=90.73  E-value=0.12  Score=43.60  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            78999999999999999988754

>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=90.72  E-value=0.52  Score=49.25  Aligned_cols=27  Identities=11%  Similarity=0.247  Sum_probs=23.7

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ...++++||||+|||.|+..||+..+.
T Consensus       511 ~~gvLl~GPPGtGKT~lAkaiA~e~~~  537 (806)
T 3cf2_A          511 SKGVLFYGPPGCGKTLLAKAIANECQA  537 (806)
T ss_dssp             CSCCEEESSTTSSHHHHHHHHHHTTTC
T ss_pred             CceEEEecCCCCCchHHHHHHHHHhCC
Confidence            345899999999999999999999853

>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=90.71  E-value=0.13  Score=42.32  Aligned_cols=24  Identities=8%  Similarity=0.184  Sum_probs=20.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=++.|+|++|+|||+|+..+..+
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            348999999999999999987643

>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=90.71  E-value=0.086  Score=42.76  Aligned_cols=22  Identities=9%  Similarity=0.261  Sum_probs=9.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus        10 ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C           10 KLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            7899999999999999988754

>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=90.69  E-value=0.11  Score=42.50  Aligned_cols=25  Identities=16%  Similarity=0.143  Sum_probs=21.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +-=|++|+|++|+|||+|+..+..+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3458999999999999999988754

>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=90.65  E-value=0.78  Score=42.55  Aligned_cols=28  Identities=7%  Similarity=0.125  Sum_probs=24.1

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.-+++|.|.+|+|||||+..++....
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4556899999999999999999988753

>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=90.59  E-value=0.13  Score=43.55  Aligned_cols=23  Identities=9%  Similarity=0.172  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        30 ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           30 KIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            89999999999999999998754

>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=90.57  E-value=0.14  Score=42.31  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999887654

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=90.53  E-value=0.1  Score=56.96  Aligned_cols=31  Identities=13%  Similarity=0.273  Sum_probs=27.8

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|++++|+|++|+|||||+..|.+-.
T Consensus      1053 sl~i~~Ge~v~ivG~sGsGKSTl~~~l~g~~ 1083 (1284)
T 3g5u_A         1053 SLEVKKGQTLALVGSSGCGKSTVVQLLERFY 1083 (1284)
T ss_dssp             CEEECSSSEEEEECSSSTTHHHHHHHHTTSS
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            3578999999999999999999999998743

>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=90.51  E-value=0.094  Score=42.73  Aligned_cols=26  Identities=8%  Similarity=0.147  Sum_probs=21.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+.=|++|+|++|+|||+|+..+..+
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcC
Confidence            34568999999999999999988754

>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=90.47  E-value=0.12  Score=43.28  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=19.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           27 KFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            7899999999999999988754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.47  E-value=0.15  Score=41.83  Aligned_cols=24  Identities=8%  Similarity=0.059  Sum_probs=20.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -|++|+|++|+|||+|+..+..+.
T Consensus        18 ~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           18 LQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999887543

>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=90.43  E-value=0.32  Score=49.53  Aligned_cols=27  Identities=15%  Similarity=0.245  Sum_probs=24.6

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++..++|.|++|+|||+|+..+++..
T Consensus       205 ~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          205 RRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            468889999999999999999999876

>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=90.39  E-value=0.15  Score=44.05  Aligned_cols=23  Identities=13%  Similarity=0.235  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|.+|+|||+|+..|..+.
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            78999999999999999988654

>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=90.33  E-value=0.14  Score=42.81  Aligned_cols=23  Identities=4%  Similarity=0.111  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           27 KLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            89999999999999999988754

>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=90.26  E-value=0.1  Score=42.21  Aligned_cols=25  Identities=16%  Similarity=0.191  Sum_probs=21.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      -+.=|++|+|++|+|||+|+..+..
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhc
Confidence            3556899999999999999987653

>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=90.26  E-value=0.17  Score=42.03  Aligned_cols=24  Identities=13%  Similarity=0.270  Sum_probs=21.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+++|+|++|+|||+|+..+....
T Consensus        21 ~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           21 MKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            478999999999999999988643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=90.26  E-value=0.13  Score=42.57  Aligned_cols=24  Identities=4%  Similarity=0.104  Sum_probs=20.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC--
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            479999999999999999887543

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=90.23  E-value=1.4  Score=43.50  Aligned_cols=28  Identities=7%  Similarity=0.072  Sum_probs=23.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+...+.|+|.+|+||||++..++....
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~  126 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQ  126 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4566899999999999999999998764

>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=90.20  E-value=0.18  Score=49.22  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=23.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ...++++||||+|||+|+..++...+
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35699999999999999999999875

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=90.19  E-value=0.11  Score=56.84  Aligned_cols=32  Identities=13%  Similarity=0.207  Sum_probs=28.1

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.+.+|++++|+|++|+|||||+..|.+-.
T Consensus       409 isl~i~~G~~~~ivG~sGsGKSTl~~ll~g~~  440 (1284)
T 3g5u_A          409 LNLKVKSGQTVALVGNSGCGKSTTVQLMQRLY  440 (1284)
T ss_dssp             EEEEECTTCEEEEECCSSSSHHHHHHHTTTSS
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33578999999999999999999999988754

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=90.17  E-value=0.18  Score=47.08  Aligned_cols=25  Identities=4%  Similarity=0.086  Sum_probs=22.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+++|+|++|+|||||+..++...
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            7889999999999999999998753

>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=90.16  E-value=0.15  Score=42.80  Aligned_cols=26  Identities=8%  Similarity=0.075  Sum_probs=22.0

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.=|++|+|++|+|||+|+..+..+.
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            34589999999999999999888764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=90.07  E-value=0.15  Score=42.54  Aligned_cols=24  Identities=4%  Similarity=-0.076  Sum_probs=21.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999988654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=90.07  E-value=0.19  Score=42.37  Aligned_cols=28  Identities=11%  Similarity=0.101  Sum_probs=23.7

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -.+--++.|+|.+|+|||+|+..++.+.
T Consensus        27 ~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           27 ESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3444578999999999999999999875

>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=90.05  E-value=0.16  Score=43.14  Aligned_cols=23  Identities=4%  Similarity=0.166  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999998764

>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=90.04  E-value=0.16  Score=42.53  Aligned_cols=23  Identities=13%  Similarity=0.179  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhhCC
Confidence            78999999999999999887653

>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=90.04  E-value=0.073  Score=44.76  Aligned_cols=24  Identities=13%  Similarity=0.140  Sum_probs=21.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.|.|++|+||||++..++....
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            378999999999999999998763

>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=90.02  E-value=0.17  Score=48.59  Aligned_cols=24  Identities=17%  Similarity=0.126  Sum_probs=21.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+|.|+||+|||+++..++....
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH
Confidence            999999999999999998887663

>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=89.99  E-value=0.13  Score=43.02  Aligned_cols=23  Identities=4%  Similarity=0.033  Sum_probs=20.1

Q ss_pred             CceeeEecCCCCChhHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      --+++|+|++|+|||+|+..+..
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34899999999999999998864

>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=89.98  E-value=0.16  Score=42.35  Aligned_cols=23  Identities=9%  Similarity=0.121  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            79999999999999999988754

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=89.96  E-value=0.16  Score=44.08  Aligned_cols=23  Identities=4%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|||||+|+..+..+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            79999999999999999887654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=89.94  E-value=0.19  Score=45.80  Aligned_cols=26  Identities=12%  Similarity=0.161  Sum_probs=23.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+..++|.|++|+|||+++..|++..
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHhC
Confidence            46789999999999999999999865

>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=89.91  E-value=0.18  Score=42.29  Aligned_cols=22  Identities=9%  Similarity=0.187  Sum_probs=19.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            7899999999999999988754

>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=89.91  E-value=0.14  Score=42.89  Aligned_cols=21  Identities=14%  Similarity=0.322  Sum_probs=18.8

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |+.|+|++|+|||+|+..+..
T Consensus        25 ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           25 KVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            789999999999999998753

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=89.85  E-value=0.13  Score=46.84  Aligned_cols=25  Identities=12%  Similarity=0.111  Sum_probs=22.3

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ++.+++|+|++|+|||||+..|..+
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            5568999999999999999999865

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.82  E-value=0.78  Score=38.35  Aligned_cols=25  Identities=12%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      --+++|+|.+|+|||+|+..+..+.
T Consensus        29 ~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           29 QPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             SCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999887653

>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=89.77  E-value=0.21  Score=45.41  Aligned_cols=25  Identities=12%  Similarity=0.174  Sum_probs=22.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-++|.|++|+|||+++..+++...
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3479999999999999999998775

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=89.69  E-value=0.14  Score=46.66  Aligned_cols=21  Identities=10%  Similarity=0.276  Sum_probs=18.4

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|+|++|+|||||+..|..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            349999999999999998764

>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=89.62  E-value=0.18  Score=44.79  Aligned_cols=22  Identities=5%  Similarity=0.143  Sum_probs=20.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +++|+|++|+|||+|+..+...
T Consensus         5 ~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            5 TVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999998754

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=89.62  E-value=0.16  Score=47.43  Aligned_cols=32  Identities=6%  Similarity=0.062  Sum_probs=25.2

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccCCc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMPGK   93 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~   93 (293)
                      ..+.|.|++|+|||+|+..++...+...+..|
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEecc
Confidence            36899999999999999999998754333333

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=89.55  E-value=0.16  Score=48.80  Aligned_cols=28  Identities=11%  Similarity=0.131  Sum_probs=24.3

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -+.+|.+++|+|.+|+|||||+..+..+
T Consensus        18 ~i~~~~kvgIVG~pnvGKSTL~n~Ltg~   45 (396)
T 2ohf_A           18 RFGTSLKIGIVGLPNVGKSTFFNVLTNS   45 (396)
T ss_dssp             CSSSCCCEEEECCSSSSHHHHHHHHHC-
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568899999999999999999998765

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=89.50  E-value=0.19  Score=41.59  Aligned_cols=22  Identities=9%  Similarity=0.315  Sum_probs=19.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus        28 ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           28 QVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7899999999999999988654

>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=89.48  E-value=0.18  Score=41.84  Aligned_cols=24  Identities=8%  Similarity=0.074  Sum_probs=20.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.=|++|+|++|+|||+|+..+..
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHh
Confidence            445899999999999999998754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=89.41  E-value=0.18  Score=47.53  Aligned_cols=31  Identities=13%  Similarity=0.209  Sum_probs=24.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCCc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPGK   93 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~   93 (293)
                      -++|.||+|+|||+|+..|+.+.+...+..|
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~~~iis~D   39 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFNGEIISGD   39 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTEEEEECC
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcCCceeccc
Confidence            5799999999999999999998753333333

>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=89.38  E-value=0.16  Score=41.70  Aligned_cols=24  Identities=4%  Similarity=0.014  Sum_probs=20.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =|++|+|++|+|||+|+..+..+.
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            489999999999999999887654

>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=89.36  E-value=0.25  Score=41.76  Aligned_cols=24  Identities=4%  Similarity=0.070  Sum_probs=21.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..++|.|++|+|||||+..++...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            467899999999999999888764

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=89.32  E-value=0.16  Score=55.67  Aligned_cols=31  Identities=16%  Similarity=0.293  Sum_probs=27.8

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|-+|++++|+|++|+|||||+..|.+-..
T Consensus       439 l~i~~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          439 LRVNAGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             EEECTTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             EeecCCcEEEEEecCCCcHHHHHHHhccccc
Confidence            5688999999999999999999999988653

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=89.30  E-value=0.25  Score=41.77  Aligned_cols=26  Identities=15%  Similarity=0.207  Sum_probs=22.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..+.|.|++|+||||++..++...+
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~g   28 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASELS   28 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45789999999999999999988764

>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=89.27  E-value=0.2  Score=42.26  Aligned_cols=23  Identities=9%  Similarity=0.160  Sum_probs=20.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =|++|+|++|+|||+|+..+..+
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            38999999999999999988754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=89.27  E-value=0.21  Score=43.06  Aligned_cols=21  Identities=10%  Similarity=0.314  Sum_probs=19.2

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |+.|+|++|+|||+|+..+..
T Consensus        39 kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           39 RVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            799999999999999998763

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=89.12  E-value=0.2  Score=42.46  Aligned_cols=23  Identities=13%  Similarity=0.403  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus        15 ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           15 KIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            78999999999999999988754

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=89.12  E-value=0.76  Score=40.50  Aligned_cols=126  Identities=10%  Similarity=0.115  Sum_probs=62.6

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEe
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFL  137 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~  137 (293)
                      -.+|+=..+.|+.|+||||.+..+++++...   +        ....++--.++.|..+.. +...+   |.--.+..+ 
T Consensus        25 ~~~G~l~vitG~MgsGKTT~lL~~a~r~~~~---g--------~kVli~k~~~d~R~ge~~-i~s~~---g~~~~a~~~-   88 (214)
T 2j9r_A           25 NQNGWIEVICGSMFSGKSEELIRRVRRTQFA---K--------QHAIVFKPCIDNRYSEED-VVSHN---GLKVKAVPV-   88 (214)
T ss_dssp             CCSCEEEEEECSTTSCHHHHHHHHHHHHHHT---T--------CCEEEEECC---------------------CCEEEC-
T ss_pred             CCCCEEEEEECCCCCcHHHHHHHHHHHHHHC---C--------CEEEEEEeccCCcchHHH-HHhhc---CCeeEEeec-
Confidence            3567777889999999999999888877421   1        123333335666533221 22111   211112211 


Q ss_pred             eCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHH----HHHHHHHhhhcCCCC----CC-CCCCCchhhhHH
Q psy5595         138 NLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSY----AEALREVSAAREEVP----GR-RGFPGYMYTNLA  208 (293)
Q Consensus       138 stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~----a~A~reisl~~ge~p----~~-~gyp~~lf~~la  208 (293)
                        .+.   .            +.+..-.++.-+|++|..--+    .+..+++... + .|    |+ --|.+.+|...+
T Consensus        89 --~~~---~------------~~~~~~~~~~dvViIDEaQF~~~~~V~~l~~l~~~-~-~~Vi~~Gl~~DF~~~~F~~~~  149 (214)
T 2j9r_A           89 --SAS---K------------DIFKHITEEMDVIAIDEVQFFDGDIVEVVQVLANR-G-YRVIVAGLDQDFRGLPFGQVP  149 (214)
T ss_dssp             --SSG---G------------GGGGGCCSSCCEEEECCGGGSCTTHHHHHHHHHHT-T-CEEEEEECSBCTTSCBCTTHH
T ss_pred             --CCH---H------------HHHHHHhcCCCEEEEECcccCCHHHHHHHHHHhhC-C-CEEEEEecccccccCccccHH
Confidence              111   0            111111123457888987543    3344444321 2 22    22 368899999999


Q ss_pred             HHhhhhcccC
Q psy5595         209 TIYERAGRVE  218 (293)
Q Consensus       209 ~l~ERag~~~  218 (293)
                      +|++.|-.+.
T Consensus       150 ~Ll~~AD~Vt  159 (214)
T 2j9r_A          150 QLMAIAEHVT  159 (214)
T ss_dssp             HHHHHCSEEE
T ss_pred             HHHHhcccEE
Confidence            9999887764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=89.11  E-value=0.16  Score=49.31  Aligned_cols=58  Identities=14%  Similarity=0.127  Sum_probs=43.9

Q ss_pred             EEecCCCccccc--------cccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCC
Q psy5595         230 LTMPNDDFKVSA--------AREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDV  289 (293)
Q Consensus       230 v~~~~~d~~dpi--------~~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~  289 (293)
                      |++--||++-..        +-++++. ++||+........+|+|++++. +.||+|+++++.+++||
T Consensus       264 VLil~DslTR~A~A~rEvs~~~Ge~~s-~Gypp~~~~~~~~~~erA~~ie-~~GSIT~i~tvlvetgd  329 (427)
T 3l0o_A          264 VVILLDSLTRLARVYNIVVPPSGKLLT-GGVDPAALYKPKRFFGAARNTR-EGGSLTIIATALVETGS  329 (427)
T ss_dssp             EEEEEECHHHHHHHHHHHSCCCSCCCS-SSCCSSCSHHHHHHHHTCEEES-SSCEEEEEEEEECSSSC
T ss_pred             EEEecccchHHHHHHHHHHHhcCCCCC-CCcCchhhcchHHHHHhhcccC-CCcceeEEEEEEecCCC
Confidence            444456776443        1235555 6999999999999999999975 69999999999888443

>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=89.09  E-value=0.15  Score=43.58  Aligned_cols=23  Identities=13%  Similarity=0.208  Sum_probs=20.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+++|+|++|+|||+|+..+..+
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            48999999999999999988764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=89.02  E-value=0.25  Score=42.81  Aligned_cols=26  Identities=4%  Similarity=0.107  Sum_probs=23.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ||..+.|.|+.|+||||++..++...
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            46778999999999999999999875

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=88.97  E-value=0.1  Score=43.06  Aligned_cols=23  Identities=9%  Similarity=0.215  Sum_probs=5.1

Q ss_pred             ceeeEecCCCCChhHHHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =|++|+|++|+|||+|+..+..+
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            38999999999999999988766

>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=88.94  E-value=0.28  Score=44.71  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++|.||||+|||.++..|++..
T Consensus       106 ~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A          106 TIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhh
Confidence            69999999999999999999875

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=88.88  E-value=0.17  Score=47.75  Aligned_cols=37  Identities=8%  Similarity=0.215  Sum_probs=28.1

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSV   95 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~   95 (293)
                      .++.-+.|.||.|+|||+|+..++...+..-|..|++
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            3556789999999999999999999875433334433

>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=88.80  E-value=0.23  Score=44.28  Aligned_cols=22  Identities=14%  Similarity=0.123  Sum_probs=20.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .+.|.|++|+||||++..++..
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5789999999999999999875

>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=88.65  E-value=0.28  Score=41.51  Aligned_cols=23  Identities=4%  Similarity=-0.047  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++|.|++|+|||||+..++...
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            57899999999999999998864

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=88.50  E-value=0.28  Score=50.11  Aligned_cols=27  Identities=15%  Similarity=0.245  Sum_probs=24.5

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+...++|.|+||+|||+|+..+++..
T Consensus       199 ~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            566789999999999999999999886

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=88.44  E-value=0.25  Score=43.11  Aligned_cols=24  Identities=17%  Similarity=0.270  Sum_probs=21.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -|++|+|.+|+|||+|+..|..+.
T Consensus        23 ~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           23 LRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999988654

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=88.44  E-value=0.25  Score=40.92  Aligned_cols=22  Identities=9%  Similarity=0.164  Sum_probs=19.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..+.++
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999998866553

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=88.44  E-value=0.26  Score=42.58  Aligned_cols=26  Identities=12%  Similarity=0.171  Sum_probs=22.8

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ..|.-++|.|++|+|||||+.++.+.
T Consensus        14 v~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           14 IDKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             ETTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             ECCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            35778999999999999999988874

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=88.44  E-value=0.19  Score=48.44  Aligned_cols=33  Identities=6%  Similarity=0.031  Sum_probs=28.5

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -|.-+.+-.|..++|+|++|+|||||+..|+..
T Consensus       148 ~~i~lelk~g~~VgLVG~~gAGKSTLL~~Lsg~  180 (416)
T 1udx_A          148 RRLRLELMLIADVGLVGYPNAGKSSLLAAMTRA  180 (416)
T ss_dssp             EEEEEEECCSCSEEEECCGGGCHHHHHHHHCSS
T ss_pred             eeeeeEEcCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            455567888999999999999999999998765

>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=88.36  E-value=2  Score=39.28  Aligned_cols=74  Identities=9%  Similarity=0.047  Sum_probs=43.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecC-cc-chhHHHHHHhhhhCCcc-ccEEEE
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMG-VN-METARFFKQDFEENGSM-ENVCLF  136 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iG-er-~e~~~~~~~~l~~~g~~-~~tvvv  136 (293)
                      +..-.++.||+|+|||+++..++++.+.+        .. .+.++..+-+-| +. -++++++.+.+...... ++.++|
T Consensus        17 ~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~--------~~-~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvvi   87 (305)
T 2gno_A           17 EGISILINGEDLSYPREVSLELPEYVEKF--------PP-KASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVI   87 (305)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTS--------CC-CTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhCchh--------hc-cCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEE
Confidence            34578999999999999999999874321        00 123444444433 22 35566666655433221 356666


Q ss_pred             eeCCCC
Q psy5595         137 LNLAND  142 (293)
Q Consensus       137 ~stsd~  142 (293)
                      +--++.
T Consensus        88 Idead~   93 (305)
T 2gno_A           88 VHDCER   93 (305)
T ss_dssp             ETTGGG
T ss_pred             eccHHH
Confidence            655544

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=88.34  E-value=0.26  Score=52.26  Aligned_cols=33  Identities=12%  Similarity=-0.171  Sum_probs=28.3

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .-|.-+.+.+|+-++|.||+|+||||++.+|+.
T Consensus       652 ~ndisl~~~~g~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          652 PNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             CEEEEEETTTBCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cccceeecCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            346667788999999999999999999998854

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=88.24  E-value=0.3  Score=50.95  Aligned_cols=26  Identities=8%  Similarity=-0.104  Sum_probs=24.0

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .+|+.++|.||+|+|||||+.+|+..
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHH
Confidence            68999999999999999999988764

>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=88.22  E-value=0.26  Score=46.15  Aligned_cols=26  Identities=4%  Similarity=0.170  Sum_probs=22.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      --+.|.||+|+|||+|+..++.....
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~~   29 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLNG   29 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTTE
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCcc
Confidence            35789999999999999999987653

---

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	293
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	3e-55
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	9e-54
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	3e-39
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	9e-26

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]} Length = 285

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]

 Score =  178 bits (453), Expect = 3e-55
 Identities = 44/206 (21%), Positives = 81/206 (39%), Gaps = 10/206 (4%)

Query: 36  SFTPRDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGK 93
              PR  + +   +G +A+D +  I RGQ+  I          IA               
Sbjct: 41  GIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIIN-----QKRF 95

Query: 94  SVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRL 153
           +   D +     ++ A+G    T     +   +  +M+   +    A+D    + + P  
Sbjct: 96  NDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYS 155

Query: 154 ALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYER 213
             +  E+      KH L+I  D+S  A A R++S      PGR  +PG ++   + + ER
Sbjct: 156 GCSMGEYFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER 214

Query: 214 AGRVEGRN--GSITQIPILTMPNDDF 237
           A ++      GS+T +P++     D 
Sbjct: 215 AAKMNDAFGGGSLTALPVIETQAGDV 240

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 276

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]

 Score =  174 bits (442), Expect = 9e-54
 Identities = 45/196 (22%), Positives = 78/196 (39%), Gaps = 20/196 (10%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
           G + +D++   A+G KI +F  AG+    +  ++                        VF
Sbjct: 55  GIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA------------KAHGGYSVF 102

Query: 108 AAMGVNMETARFFKQDFEENG------SMENVCLFLNLANDPTIERIITPRLALTTAEFL 161
           A +G           +  E+G      +   V L     N+P   R       LT AE+ 
Sbjct: 103 AGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYF 162

Query: 162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRN 221
             Q  + VL+ + ++  + +A  EVSA    +P   G+   + T++ T+ ER      + 
Sbjct: 163 RDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITT--TKK 220

Query: 222 GSITQIPILTMPNDDF 237
           GSIT +  + +P DD 
Sbjct: 221 GSITSVQAIYVPADDL 236

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 276

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]

 Score =  136 bits (344), Expect = 3e-39
 Identities = 50/206 (24%), Positives = 84/206 (40%), Gaps = 18/206 (8%)

Query: 36  SFTPRDLIGD--SSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGK 93
               R  + +   +G  AID M  + RGQ+  I          +A               
Sbjct: 40  GIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQ-------- 91

Query: 94  SVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRL 153
                   N   V+ A+G    +      +F+E G+ME   +    A+ P   + + P  
Sbjct: 92  -----QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYT 146

Query: 154 ALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYER 213
               AE+  Y+ E+H L+I  D+S  A+A R++S      PGR  +PG ++   + + ER
Sbjct: 147 GAALAEYFMYR-ERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER 205

Query: 214 AGRVE--GRNGSITQIPILTMPNDDF 237
           A ++      GS+T +PI+     D 
Sbjct: 206 AAKLSSLLGEGSMTALPIVETQAGDV 231

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]} Length = 289

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]

 Score =  101 bits (252), Expect = 9e-26
 Identities = 27/190 (14%), Positives = 54/190 (28%), Gaps = 20/190 (10%)

Query: 48  GKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVF 107
             R +D+ + I RGQ+  I +        +   I +                  N     
Sbjct: 30  TARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQS--------------IAYNHPDCV 75

Query: 108 AAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEK 167
             + +  E      ++  E   +    +  +  ++P    +    + +  A+ L     K
Sbjct: 76  LMVLLIDE----RPEEVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHK-K 130

Query: 168 HVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQI 227
            V+++L  ++  A A   V  A  +V    G            +  A  VE         
Sbjct: 131 DVIILLDSITRLARAYNTVVPASGKVL-TGGVDANALHRPKRFFGAARNVEEGGSLTIIA 189

Query: 228 PILTMPNDDF 237
             L       
Sbjct: 190 TALIDTGSKM 199

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	293
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	100.0
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	100.0
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	100.0
d1xpua3	289	Transcription termination factor Rho, ATPase domai	100.0
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	98.24
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	98.12
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	98.03
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.96
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.68
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.66
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.57
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	97.44
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.38
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	97.29
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.28
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.23
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.97
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.95
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.89
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.85
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.78
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.61
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.58
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.39
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.36
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.29
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.29
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.26
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.24
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.24
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.24
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.21
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.2
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.16
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.16
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.13
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.13
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.11
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.1
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.08
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.08
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.06
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.05
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.05
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.04
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.0
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.96
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.93
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.93
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.92
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.91
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.86
d1okkd2	207	GTPase domain of the signal recognition particle r	95.85
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.83
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.8
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.79
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.76
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.75
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.73
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.72
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.67
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.67
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.67
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.65
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.62
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.58
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.55
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.52
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.51
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.5
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.48
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.42
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.38
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.35
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.33
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.3
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.27
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.24
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.23
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.23
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.23
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.2
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.17
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.14
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.12
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.11
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.07
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.06
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.02
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.9
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.84
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.78
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.75
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.71
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.68
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.67
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.66
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.62
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.59
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.59
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	94.52
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	94.45
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.43
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.3
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.27
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.06
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	94.05
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.96
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.95
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	93.89
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.86
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.83
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.83
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.76
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.73
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.68
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.68
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.68
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.67
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	93.65
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.63
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.63
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.59
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.58
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.58
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.57
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.57
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.57
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.47
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.46
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.45
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.42
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.37
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.29
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.29
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.27
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.27
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.26
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.24
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.17
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.06
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	93.02
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.02
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.01
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.99
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.99
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.97
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	92.95
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.91
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	92.87
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	92.79
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.75
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.71
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	92.58
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.54
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.54
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.51
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.43
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.39
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	92.39
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.35
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.28
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.21
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.1
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.95
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.84
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.79
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.74
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	91.66
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.64
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	91.53
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.48
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.34
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.3
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.28
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.15
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.12
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.11
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.04
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.97
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.76
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.68
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.57
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.4
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.39
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.38
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.3
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	90.26
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.01
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.87
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	89.79
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	89.77
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.76
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	89.29
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	89.25
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.21
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.42
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	88.42
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.4
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	88.23
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	88.03
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	87.75
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	87.35
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.03
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	86.94
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	86.55
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	85.98
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	85.66
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	85.22
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	85.08
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	84.7
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	84.63
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	84.57
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	84.27
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	83.75
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	82.24
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	82.23
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.2
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	82.1
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	82.02
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	81.73
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	81.45
d1xpua3	289	Transcription termination factor Rho, ATPase domai	81.15
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	80.44
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	80.37
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	80.24

>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=100.00  E-value=7.3e-69  Score=495.84  Aligned_cols=243  Identities=21%  Similarity=0.293  Sum_probs=222.2

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+.+..+...   .....++.+.||..|..+++++  +||||+||+|+|||||||++|||++|+|||+|+.+|
T Consensus        14 id~lG~piDg~~~i~~~---~~~~i~~~~p~~~~R~~i~~~l--~TGIraID~l~pigkGQr~~If~~~g~GKt~l~~~i   88 (276)
T d2jdid3          14 MNVIGEPIDERGPIKTK---QFAAIHAEAPEFVEMSVEQEIL--VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMEL   88 (276)
T ss_dssp             ECTTSCBCSSSCCCCCS---CEEESCCCCCCGGGCCCCCCEE--CCSCHHHHHHSCEETTCEEEEEECTTSSHHHHHHHH
T ss_pred             eCCCcceeCCCCCCCCc---ccccccCCCCChhHhcCCCccc--ccCceeeeeeccccCCCEEEeeCCCCCCHHHHHHHH
Confidence            46789998887665433   3344567788899999999999  999999999999999999999999999999999999


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCc------cccEEEEeeCCCCchhhhhchHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGS------MENVCLFLNLANDPTIERIITPRLAL  155 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~------~~~tvvv~stsd~~~~~r~~a~~~a~  155 (293)
                      ++++.++            ++++|||++||||.+|+.++++++.+.++      ++|+++|++++|+||.+|++++|+|+
T Consensus        89 ~~~~~~~------------~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~  156 (276)
T d2jdid3          89 INNVAKA------------HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGL  156 (276)
T ss_dssp             HHHHTTT------------CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHhh------------CCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHH
Confidence            9997542            46799999999999999999999887664      56999999999999999999999999


Q ss_pred             HHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCC
Q psy5595         156 TTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPND  235 (293)
Q Consensus       156 tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~  235 (293)
                      ++|||||+++|+|||+++|||||||+|+||+++++||+|+++|||+++|+.|++|||||++.  ++||||+|++|++|+|
T Consensus       157 ~iAEyf~~~~G~~VLv~~Dsltr~A~A~reis~~~ge~p~~~gyp~~l~~~~~~l~ERag~~--~~GSIT~i~~v~~~~~  234 (276)
T d2jdid3         157 TVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT--KKGSITSVQAIYVPAD  234 (276)
T ss_dssp             HHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSCC--SSCCEEEEEEEECGGG
T ss_pred             HHHHHHHhcCCCeEEEEEcchhHHHHHHHHHHHhcCCCCCcccCchhHHHHHHHHHHhhccC--CCcccceEEEEEccCC
Confidence            99999998779999999999999999999999999999999999999999999999999985  5899999999999999


Q ss_pred             Ccccccccc-------------ccCCCCCCCCcccccccch
Q psy5595         236 DFKVSAARE-------------EVPGRRGFPGYMYTNLATI  263 (293)
Q Consensus       236 d~~dpi~~~-------------~la~~r~~Pai~~~~~~s~  263 (293)
                      |++|||+++             +|+.+++|||||+..|.||
T Consensus       235 d~~dpi~~~~~sitdg~i~Lsr~la~~g~~PAId~~~S~SR  275 (276)
T d2jdid3         235 DLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSR  275 (276)
T ss_dssp             CTTSHHHHHHGGGCSEEEEBCHHHHTTTCSSCBCTTSCEET
T ss_pred             CCCCcchHHHHhhcceEEEECHHHHhCCCCCCcCCccCccC
Confidence            999999996             7889999999999999876

>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=100.00  E-value=1.2e-68  Score=494.69  Aligned_cols=246  Identities=21%  Similarity=0.292  Sum_probs=226.3

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      .+..|++.+.+..+...++.   ...+.+.||.+|.++++++  +||||+||+|+|||||||++|||++|+|||+|+.++
T Consensus        13 ~d~~G~piDg~~~~~~~~~~---~i~~~~p~~~~R~~~~~~l--~TGi~~ID~l~pig~GQr~~Ifg~~g~GKt~l~~~~   87 (276)
T d1fx0a3          13 INALAKPIDGRGEITASESR---LIESPAPGIMSRRSVYEPL--QTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDT   87 (276)
T ss_dssp             CCSSSCCSSSSCCCCCSEEE---ESSCCCCCSSSBCCCCSBC--CCSCTTTTTTSCCBTTCBCBEEESSSSSHHHHHHHH
T ss_pred             eCCCccccCCCCCCCCCccc---cccCCCcChhhccCCCccc--cccceEEeccccccCCceEeeccCCCCChHHHHHHH
Confidence            56789999888776554433   3456678899999999999  999999999999999999999999999999999987


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..             .++++|||++||||.+|+.++++++.+.++++||++|++++|+|+.+|++++++|+++||||
T Consensus        88 ~~~~~-------------~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyf  154 (276)
T d1fx0a3          88 ILNQQ-------------GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYF  154 (276)
T ss_dssp             HHTCC-------------TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHH
T ss_pred             Hhhhc-------------ccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHHHHHHHHHH
Confidence            76653             25689999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      |++ |||||+++|||||||+|+||+|+++||+|+++|||+++|+.+++||||||++++  ++||||+|++|++|+||++|
T Consensus       155 rd~-G~~Vlll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSIT~i~~v~~~~~d~~d  233 (276)
T d1fx0a3         155 MYR-ERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSA  233 (276)
T ss_dssp             HHT-TCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCTTS
T ss_pred             HHc-CCceeEEeeccHHHHHHHHHHHHHcCCCCCcCCcCchHHHHHHHHHHHHhccccCCCCcceEEEEEEEecCCCcCc
Confidence            998 999999999999999999999999999999999999999999999999999864  47999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||+++             +|+.+++|||||+..|.||...
T Consensus       234 pi~~~~~~~~dg~i~Lsr~la~~g~~PAId~l~S~SR~~~  273 (276)
T d1fx0a3         234 YIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGS  273 (276)
T ss_dssp             HHHHHHHTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGG
T ss_pred             chHHHHHhhcCeEEEECHHHHhCCCCCCcCCCccccccCc
Confidence            99996             8999999999999999876543

>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=100.00  E-value=1.9e-68  Score=495.42  Aligned_cols=254  Identities=18%  Similarity=0.249  Sum_probs=226.4

Q ss_pred             CcccCCCCCCCCceeEEEecceeecccccCCCccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHH
Q psy5595           2 KAVVGEEALTPDDLLYLEFLTKFEKNFVSQEGERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQI   81 (293)
Q Consensus         2 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I   81 (293)
                      ++..||+.+.+..+..   +.+...+..+.||.+|.+++++|  .||||+||+|+|||||||++|||++|+|||+|+++|
T Consensus        14 id~~G~piDg~~~~~~---~~~~~i~~~~p~~~~R~~i~e~l--~TGIraID~l~pig~GQr~~If~~~g~GKt~ll~~~   88 (285)
T d2jdia3          14 VDALGNAIDGKGPIGS---KARRRVGLKAPGIIPRISVREPM--QTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDT   88 (285)
T ss_dssp             ECTTSCBCSSSCCCCC---SEEEESSCCCCCSTTBCCCCSBC--CCSCHHHHHHSCCBTTCBCEEEESTTSSHHHHHHHH
T ss_pred             ECCCccccCCCCCCCC---CccccccCCCcCchhccCCCccc--ccCceEEecccCccCCCEEEeecCCCCChHHHHHHH
Confidence            4678999887766543   33444556778899999999999  999999999999999999999999999999999988


Q ss_pred             HHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHH
Q psy5595          82 CRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFL  161 (293)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyf  161 (293)
                      +++..+.+-.     .....+.+|||++||||.+|+.+|++.+.+.++++|+++|++++|+||.+|++++++|+++||||
T Consensus        89 ~~~~~~~~~~-----~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyf  163 (285)
T d2jdia3          89 IINQKRFNDG-----TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYF  163 (285)
T ss_dssp             HHHTHHHHTS-----SCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHhhccc-----cccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHH
Confidence            8875321100     01124678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCC--CCcceeeeeEEEecCCCccc
Q psy5595         162 AYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEG--RNGSITQIPILTMPNDDFKV  239 (293)
Q Consensus       162 r~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~--~~GSiT~i~~v~~~~~d~~d  239 (293)
                      ||+ |||||+++|||||||+|+||+++++||+|+++|||+++|+.+++||||||++++  ++||||+|++|++|+||++|
T Consensus       164 rd~-G~~VLll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSiT~i~~v~~~~dD~td  242 (285)
T d2jdia3         164 RDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSA  242 (285)
T ss_dssp             HHT-TCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCCBBCGGGTCCEEEEEEEEECSTTCTTS
T ss_pred             HHc-CCcEEEEEcChHHHHHHHHHHHHhcCCCCCcCCcCchHHHHHHHHHHHHhcccCCCCCeeEEEEEEEEecCCCCCC
Confidence            998 999999999999999999999999999999999999999999999999999864  48999999999999999999


Q ss_pred             ccccc-------------ccCCCCCCCCcccccccchhhh
Q psy5595         240 SAARE-------------EVPGRRGFPGYMYTNLATIYER  266 (293)
Q Consensus       240 pi~~~-------------~la~~r~~Pai~~~~~~s~~~r  266 (293)
                      ||+|+             +|+.+++|||||+..|.||-..
T Consensus       243 pI~~~~~~i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~  282 (285)
T d2jdia3         243 YIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGS  282 (285)
T ss_dssp             HHHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGG
T ss_pred             chhHHHHhhcCcEEEEcHHHHhcCCCCCcCCcccccccCc
Confidence            99996             8899999999999999876443

>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=100.00  E-value=3.4e-58  Score=426.61  Aligned_cols=218  Identities=17%  Similarity=0.222  Sum_probs=192.8

Q ss_pred             ecccccCCCccccCCCC----ccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCC
Q psy5595          25 EKNFVSQEGERSFTPRD----LIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSE  100 (293)
Q Consensus        25 ~~~~~~~~p~~r~~p~e----~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~  100 (293)
                      +.+..|++|.+|...+.    ++  .||+|+||+|+|||||||++||||+|+|||+|+.+|+++....         +  
T Consensus         5 fd~l~Pi~p~~r~~le~~~~~~~--~~~~r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~---------~--   71 (289)
T d1xpua3           5 FENLTPLHANSRLRMERGNGSTE--DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN---------H--   71 (289)
T ss_dssp             GGCCCCCSTTSBCCC----CCST--HHHHHHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH---------C--
T ss_pred             CCCCCCCCCCCccccccCCCCcc--cccceeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc---------C--
Confidence            45667888887765432    33  6889999999999999999999999999999999999988532         1  


Q ss_pred             CceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         101 DNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       101 ~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ...++|+++||||.++++++.+..       ++++|++++|+||..|++++++|+++|||||++ |+||||++||+||||
T Consensus        72 ~~~v~~~~~iger~~ev~~~~~~~-------~~~vv~~t~d~~~~~r~~~~~~a~~iAEyfrd~-G~dVLli~Dsltr~A  143 (289)
T d1xpua3          72 PDCVLMVLLIDERPEEVTEMQRLV-------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEH-KKDVIILLDSITRLA  143 (289)
T ss_dssp             TTSEEEEEEEEECHHHHHHHHHHC-------SSEEEEEETTSCHHHHHHHHHHHHHHHHHHHTT-TCEEEEEESCHHHHH
T ss_pred             CCeEEEEEeeceeHHHHHhHHhhc-------ceEEEeccCCCchhHHHHHHHHHHHHHHHHHHh-ccCceeecCcHHHHH
Confidence            346888999999999999987754       779999999999999999999999999999998 999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhcccCCCCcceeeeeEEEecCCC-cccccccc-------------cc
Q psy5595         181 EALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDD-FKVSAARE-------------EV  246 (293)
Q Consensus       181 ~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~~~~~GSiT~i~~v~~~~~d-~~dpi~~~-------------~l  246 (293)
                      +|+||+|+++||+|+ +|||+++|+.+++|+|||++++ ++||+|+++++++++|| ++|||+++             ++
T Consensus       144 ~A~rEis~~~ge~p~-~gyp~~~~~~~~~l~era~~~~-~gGsit~~~~~~~~~~dd~~~pI~~~~~~i~dg~ivLsr~l  221 (289)
T d1xpua3         144 RAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVE-EGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKI  221 (289)
T ss_dssp             HHHHHHSCC---CBS-SSSBTTTTHHHHHHHHTCEECT-TSCEEEEEEEEECSSSCHHHHHHHHHHTTTSSEEEEBCHHH
T ss_pred             HHHHHHHhhccCCCc-CCcChhhhhhhHHHHHhccCCC-CCCcceEEEEEeecCCCccCchHHHHHhcccCeEEEEchhH
Confidence            999999999999996 7999999999999999999986 58999999999999654 89999996             78


Q ss_pred             CCCCCCCCcccccccchhh
Q psy5595         247 PGRRGFPGYMYTNLATIYE  265 (293)
Q Consensus       247 a~~r~~Pai~~~~~~s~~~  265 (293)
                      +.+++|||||+..|.|+++
T Consensus       222 a~~g~~PAId~~~S~SR~~  240 (289)
T d1xpua3         222 AEKRVFPAIDYNRSGTRKE  240 (289)
T ss_dssp             HTTTCSSCBCTTTCEESCG
T ss_pred             HhCCCCCCCccCCcccccc
Confidence            9999999999999999975

>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=98.24  E-value=1.3e-06  Score=74.22  Aligned_cols=65  Identities=15%  Similarity=0.125  Sum_probs=52.6

Q ss_pred             CCCCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccch
Q psy5595          38 TPRDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNME  115 (293)
Q Consensus        38 ~p~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e  115 (293)
                      ..+..+  .||+.-+|-++-  |.+|.-.+|.|+||+|||+|+.+|+.++.+             ....++|....+..+
T Consensus         3 ~~~~ri--~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~-------------~~~~~~~is~e~~~~   67 (242)
T d1tf7a2           3 SSNVRV--SSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA-------------NKERAILFAYEESRA   67 (242)
T ss_dssp             CCCCEE--CCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT-------------TTCCEEEEESSSCHH
T ss_pred             CCCCcc--CCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHH-------------hccccceeeccCCHH
Confidence            344456  899999999998  889999999999999999999999999854             234577777766554


Q ss_pred             hH
Q psy5595         116 TA  117 (293)
Q Consensus       116 ~~  117 (293)
                      ..
T Consensus        68 ~~   69 (242)
T d1tf7a2          68 QL   69 (242)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.12  E-value=3.9e-06  Score=74.93  Aligned_cols=115  Identities=19%  Similarity=0.271  Sum_probs=78.0

Q ss_pred             ccCCCCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc
Q psy5595          36 SFTPRDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV  112 (293)
Q Consensus        36 r~~p~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe  112 (293)
                      +...-+.+  .||...+|.++.   +.+|+=..|+|++|+|||+|+.+++.++.+             .+..+||+=.=.
T Consensus        34 ~~~~~~~i--~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~-------------~g~~~vyIDtE~   98 (269)
T d1mo6a1          34 ARQPISVI--PTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA-------------AGGVAAFIDAEH   98 (269)
T ss_dssp             CCCCSCCB--CCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHH-------------TTCEEEEEESSC
T ss_pred             cCCccceE--ccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhc-------------CCCEEEEEECCc
Confidence            34444677  899999999886   668999999999999999999999998865             245677654333


Q ss_pred             cchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         113 NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       113 r~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ..+ .+++. .+   |+-..-++++.+ +.  .+      -++.++|.+..+ ++..|||+||++-+.
T Consensus        99 ~~~-~e~a~-~~---GvD~d~il~~~~-~~--~E------~~~~~~~~l~~~-~~~~liIiDSi~al~  151 (269)
T d1mo6a1          99 ALD-PDYAK-KL---GVDTDSLLVSQP-DT--GE------QALEIADMLIRS-GALDIVVIDSVAALV  151 (269)
T ss_dssp             CCC-HHHHH-HH---TCCGGGCEEECC-SS--HH------HHHHHHHHHHHT-TCEEEEEEECSTTCC
T ss_pred             cCC-HHHHH-Hh---CCCHHHeEEecC-CC--HH------HHHHHHHHHHhc-CCCCEEEEecccccc
Confidence            221 12222 22   332222333332 32  33      346678888877 888999999998766

>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=98.03  E-value=5.4e-06  Score=73.86  Aligned_cols=115  Identities=17%  Similarity=0.215  Sum_probs=76.0

Q ss_pred             ccCCCCccccCCCceeeeeccccc---CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCc
Q psy5595          36 SFTPRDLIGDSSGKRAIDVMNSIA---RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGV  112 (293)
Q Consensus        36 r~~p~e~l~~~TGiraID~l~pig---rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGe  112 (293)
                      +..+-+.+  .||...+|.++-.|   +|.=..|+|++|+|||+|+.+++.++.+             .+..|+|.=.=.
T Consensus        31 ~~~~~~~i--~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk-------------~g~~v~yiDtE~   95 (268)
T d1xp8a1          31 SKLDVQVV--STGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQK-------------AGGTCAFIDAEH   95 (268)
T ss_dssp             CCCCCCEE--CCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-------------TTCCEEEEESSC
T ss_pred             CCCCCCeE--cCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHh-------------CCCEEEEEECCc
Confidence            44445678  99999999998755   7888899999999999999999999875             234566653222


Q ss_pred             cchhHHHHHHhhhhCCccccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         113 NMETARFFKQDFEENGSMENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       113 r~e~~~~~~~~l~~~g~~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                      ..+. + +.+   .-|+-..-++++ ..+.  .+      -++.++|.+..+ +..-|+|+||++-+.
T Consensus        96 ~~~~-~-~a~---~~Gvd~d~i~~~-~~~~--~E------~~~~~~~~l~~~-~~~~liIiDSi~al~  148 (268)
T d1xp8a1          96 ALDP-V-YAR---ALGVNTDELLVS-QPDN--GE------QALEIMELLVRS-GAIDVVVVDSVAALT  148 (268)
T ss_dssp             CCCH-H-HHH---HTTCCGGGCEEE-CCSS--HH------HHHHHHHHHHTT-TCCSEEEEECTTTCC
T ss_pred             cCCH-H-HHH---HhCCCchhEEEE-cCCC--HH------HHHHHHHHHHhc-CCCcEEEEecccccc
Confidence            2211 1 222   224322223333 3332  23      345677888776 777899999998755

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.96  E-value=1.1e-05  Score=71.43  Aligned_cols=110  Identities=15%  Similarity=0.275  Sum_probs=71.9

Q ss_pred             CCccccCCCceeeeeccc---ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchh
Q psy5595          40 RDLIGDSSGKRAIDVMNS---IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMET  116 (293)
Q Consensus        40 ~e~l~~~TGiraID~l~p---igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~  116 (293)
                      -+.+  .||...+|.++-   |-+|+=..|+|++|+|||+|+.+++.++.+             .+..+||+-.=.+.+.
T Consensus        32 ~~~i--sTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~-------------~g~~~vyidtE~~~~~   96 (263)
T d1u94a1          32 VETI--STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-------------EGKTCAFIDAEHALDP   96 (263)
T ss_dssp             CCEE--CCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-------------TTCCEEEEESSCCCCH
T ss_pred             CCeE--ccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHc-------------CCCEEEEEccccccCH
Confidence            3577  899999998764   338899999999999999999999999875             2345566533333221


Q ss_pred             HHHHHHhhhhCCc-cccEEEEeeCCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHH
Q psy5595         117 ARFFKQDFEENGS-MENVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYA  180 (293)
Q Consensus       117 ~~~~~~~l~~~g~-~~~tvvv~stsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a  180 (293)
                       .+    ++.-|+ .++. +++. .+.  .++      .+.+.+.+..+ +..-|+|+||++-+.
T Consensus        97 -~~----a~~~Gvd~d~v-~~~~-~~~--~E~------~~~~i~~l~~~-~~~~liViDSi~al~  145 (263)
T d1u94a1          97 -IY----ARKLGVDIDNL-LCSQ-PDT--GEQ------ALEICDALARS-GAVDVIVVDSVAALT  145 (263)
T ss_dssp             -HH----HHHTTCCGGGC-EEEC-CSS--HHH------HHHHHHHHHHH-TCCSEEEEECGGGCC
T ss_pred             -HH----HHHhCCCHHHE-EEec-CCC--HHH------HHHHHHHHHhc-CCCCEEEEECccccc
Confidence             11    222344 2443 3332 222  232      44566777766 666689999998664

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.68  E-value=2.9e-05  Score=64.14  Aligned_cols=63  Identities=10%  Similarity=0.060  Sum_probs=48.3

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhH
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETA  117 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~  117 (293)
                      +.+  .|||..+|-++-  +.+|.-..|+|+||+|||+|+.+++.+..+.            ....+.|+...+..+..
T Consensus         6 ~~i--~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~------------~~~~~~~~s~e~~~~~~   70 (242)
T d1tf7a1           6 AKM--RTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIE------------FDEPGVFVTFEETPQDI   70 (242)
T ss_dssp             CEE--CCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHH------------HCCCEEEEESSSCHHHH
T ss_pred             Ccc--cCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHh------------cCCCcccccccCCHHHH
Confidence            445  899999999997  8899999999999999999999987765321            12246666666655444

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=9.2e-06  Score=65.22  Aligned_cols=42  Identities=17%  Similarity=0.324  Sum_probs=39.6

Q ss_pred             CCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          46 SSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        46 ~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .||++.+|-++-  |-+|+=..|.|+||+|||+|+.+++.++.+
T Consensus         6 ~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_           6 TTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             CCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             cCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            799999999998  889999999999999999999999998754

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.57  E-value=6.8e-05  Score=62.11  Aligned_cols=64  Identities=8%  Similarity=0.156  Sum_probs=48.8

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN  113 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer  113 (293)
                      +.+  .|||.-+|.++.  +-+|+-.+|.|+||+|||+|+.+++.++.+..       +....+..++|+-.-+.
T Consensus        14 ~~i--~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~-------~~~~~~~~~~~i~~~~~   79 (251)
T d1szpa2          14 ICL--TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPL-------DIGGGEGKCLYIDTEGT   79 (251)
T ss_dssp             CEE--CCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCT-------TTTCCSCEEEEEESSSC
T ss_pred             Cee--cCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhh-------hhccCCceEEEEeecch
Confidence            456  899999999998  78999999999999999999999988764321       01112446777766554

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=0.00025  Score=59.09  Aligned_cols=45  Identities=18%  Similarity=0.253  Sum_probs=41.1

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.+  .|||.-+|-++-  |-+|+-++|.|+||+|||+|+.+++.++.+
T Consensus        17 ~ri--~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          17 FHI--TTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             CCB--CCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             cee--cCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            456  899999999997  999999999999999999999999998754

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.38  E-value=6.2e-05  Score=63.18  Aligned_cols=44  Identities=18%  Similarity=0.298  Sum_probs=40.3

Q ss_pred             CccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          41 DLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        41 e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+  .|||.-+|.++-  +.+|+-.+|.|+||+|||+|+.+++.+..
T Consensus        16 ~ri--~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          16 GRI--STGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             CEE--CCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeE--CCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            456  899999999988  88999999999999999999999998874

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.29  E-value=2.7e-05  Score=64.51  Aligned_cols=47  Identities=13%  Similarity=0.095  Sum_probs=42.1

Q ss_pred             CCCccccCCCceeeeeccc--ccCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          39 PRDLIGDSSGKRAIDVMNS--IARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        39 p~e~l~~~TGiraID~l~p--igrGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ..+.+  .||+.-+|-++-  +.+|+-..|.|+||+|||+++.+++.++..
T Consensus        12 ~~~~i--~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          12 TVWKL--STSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             TCCEE--CCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             CCcee--cCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            33456  899999999998  899999999999999999999999998853

>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=97.28  E-value=0.00058  Score=58.63  Aligned_cols=41  Identities=24%  Similarity=0.236  Sum_probs=36.6

Q ss_pred             CCCceeeeeccc-ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          46 SSGKRAIDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        46 ~TGiraID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .||+..+|-++- +.+|+=..|.|+||+|||+++.+|+.+..
T Consensus        19 ~TG~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a   60 (277)
T d1cr2a_          19 FSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWG   60 (277)
T ss_dssp             CCSCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhh
Confidence            899999997653 66999999999999999999999998764

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.23  E-value=0.00014  Score=61.85  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=21.9

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +.|.|++|+|||||++.++++..+
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~   62 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKK   62 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcc
Confidence            689999999999999999998853

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.97  E-value=0.0008  Score=54.43  Aligned_cols=30  Identities=7%  Similarity=0.163  Sum_probs=24.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccCC
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMPG   92 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~~   92 (293)
                      |+.|+|+||+||||++..|+..-+..++..
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            688999999999999999998766555543

>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=96.95  E-value=9.8e-05  Score=66.16  Aligned_cols=61  Identities=25%  Similarity=0.471  Sum_probs=50.7

Q ss_pred             EEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccC--CccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGR--NGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~--~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-.        +++|.+++||+..++.+..+|||+|++.+.  .||+|+++++++++||-
T Consensus       170 VLll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSiT~i~~v~~~~dD~  240 (285)
T d2jdia3         170 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDV  240 (285)
T ss_dssp             EEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCCBBCGGGTCCEEEEEEEEECSTTCT
T ss_pred             EEEEEcChHHHHHHHHHHHHhcCCCCCcCCcCchHHHHHHHHHHHHhcccCCCCCeeEEEEEEEEecCCCC
Confidence            44445777755332        599999999999999999999999998854  89999999999999883

>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=96.89  E-value=0.00025  Score=63.19  Aligned_cols=56  Identities=29%  Similarity=0.525  Sum_probs=48.4

Q ss_pred             CCccccccc--------cccCCCCCCCCcccccccchhhhccccccC--CccccccceeecCCCCC
Q psy5595         235 DDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGR--NGSITQIPILTMPNDVG  290 (293)
Q Consensus       235 ~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~--~Gs~~~~~~~~~~~~~~  290 (293)
                      ||++-..-.        +++|.+++||...++.+.++|||+|++.++  -||+|+++++.+++||-
T Consensus       166 Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSIT~i~~v~~~~~d~  231 (276)
T d1fx0a3         166 DDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDV  231 (276)
T ss_dssp             ECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCT
T ss_pred             eccHHHHHHHHHHHHHcCCCCCcCCcCchHHHHHHHHHHHHhccccCCCCcceEEEEEEEecCCCc
Confidence            777755332        489999999999999999999999998864  69999999999999883

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.85  E-value=0.0013  Score=55.03  Aligned_cols=25  Identities=16%  Similarity=0.270  Sum_probs=22.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+++.||||+|||+++..|+++.+
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~~~   60 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASELQ   60 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcHHHHHHHHHhccC
Confidence            3699999999999999999999885

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=96.78  E-value=0.0029  Score=53.72  Aligned_cols=33  Identities=21%  Similarity=0.253  Sum_probs=28.0

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|+.|.|   |+-..|+|++|+|||+|+.+|+.+.+
T Consensus        22 li~G~~p---g~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          22 VLPNMVA---GTVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             EETTEET---TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HhCCccC---CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4566655   78999999999999999999998764

>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=96.61  E-value=0.00054  Score=54.38  Aligned_cols=24  Identities=25%  Similarity=0.421  Sum_probs=22.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |++|.||+|+|||||+..|+....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCC
Confidence            789999999999999999998764

>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=96.58  E-value=0.00047  Score=54.02  Aligned_cols=25  Identities=4%  Similarity=0.157  Sum_probs=22.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+|+|+|++|+|||||+..|+...+
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999999874

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=96.39  E-value=0.0063  Score=52.86  Aligned_cols=36  Identities=19%  Similarity=0.249  Sum_probs=27.2

Q ss_pred             eeeeecccccC--CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          50 RAIDVMNSIAR--GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        50 raID~l~pigr--GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++++.|.-.+-  ..-++|.|.+|+|||||+.++.+..
T Consensus        31 ~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          31 RVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             HHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            45566654332  3457899999999999999998875

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.00093  Score=52.21  Aligned_cols=26  Identities=4%  Similarity=0.096  Sum_probs=22.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ..+.|.|+||+|||||+.++++...+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            35899999999999999999988743

>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=96.29  E-value=0.00099  Score=52.01  Aligned_cols=25  Identities=16%  Similarity=0.442  Sum_probs=22.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++.|.|+||+||||++..|+..-+.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~   30 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGL   30 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            6899999999999999999988753

>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=96.29  E-value=0.0068  Score=49.04  Aligned_cols=25  Identities=12%  Similarity=0.127  Sum_probs=20.7

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +=+++.|+||+||||++.+++.+.+
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~~   39 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSAG   39 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGGT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4578899999999999998876543

>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=96.26  E-value=0.0028  Score=54.57  Aligned_cols=24  Identities=13%  Similarity=0.196  Sum_probs=22.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++.||||||||+|+..||++.+
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~~   65 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEESN   65 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECcCCCCHHHHHHHHhhccc
Confidence            489999999999999999999885

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.24  E-value=0.0012  Score=51.42  Aligned_cols=27  Identities=15%  Similarity=0.084  Sum_probs=24.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +|..+.|.|.||+||||++..+++.-.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            688999999999999999999998764

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.24  E-value=0.0012  Score=57.06  Aligned_cols=33  Identities=15%  Similarity=0.231  Sum_probs=28.6

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|-+|+.++|+||+|+|||||+.+|+.-.
T Consensus        18 ~isl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          18 DINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            345789999999999999999999999887643

>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=96.24  E-value=0.0042  Score=51.51  Aligned_cols=27  Identities=7%  Similarity=-0.022  Sum_probs=24.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++.++|.|++|+|||+|+.+++++.+
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~~   54 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINELN   54 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHCC
Confidence            578899999999999999999998874

>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=96.21  E-value=0.0014  Score=51.37  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=23.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +|=++.|+|+||+||||++..++..-
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            56689999999999999999999875

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.20  E-value=0.001  Score=55.98  Aligned_cols=31  Identities=13%  Similarity=0.276  Sum_probs=27.7

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+-+|+.++|.|++|+|||||+..|+...
T Consensus        21 s~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          21 TMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            3578999999999999999999999998754

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.16  E-value=0.0012  Score=57.10  Aligned_cols=34  Identities=21%  Similarity=0.258  Sum_probs=28.2

Q ss_pred             eeee-ecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          50 RAID-VMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        50 raID-~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +|+| .=+.|-+|+.++|+|++|+|||||+..|+.
T Consensus        19 ~al~~isl~i~~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEeceEEEEcCCCEEEEECCCCCCcchhhHhccC
Confidence            4443 336899999999999999999999998765

>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=96.16  E-value=0.0071  Score=55.70  Aligned_cols=118  Identities=9%  Similarity=0.058  Sum_probs=53.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEeeC
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNL  139 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~st  139 (293)
                      +-.+.+|+|+||||||.|+..+|+.....    +                               ....+..+.++....
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~~i~~~----~-------------------------------vp~~l~~~~i~~ld~   86 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQRIVKG----D-------------------------------VPEGLKGKRIVSLQM   86 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHT----C-------------------------------SCTTSTTCEEEEECC
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHHHHHhC----C-------------------------------CCHHHcCceEEEeeH
Confidence            34458999999999999999888765321    0                               011112244444555


Q ss_pred             CCCchhhhhchHHHH--HHHHHHHHHhcCCceEEEecchhHHHHHHHHHhhhcCCCCCCCCCCCchhhhHHHHhhhhccc
Q psy5595         140 ANDPTIERIITPRLA--LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTNLATIYERAGRV  217 (293)
Q Consensus       140 sd~~~~~r~~a~~~a--~tiAEyfr~~~G~~VLli~Dsltr~a~A~reisl~~ge~p~~~gyp~~lf~~la~l~ERag~~  217 (293)
                      +..-++.+|+..+-.  ..+-+..... ..+++|++|++..+..+..--           | -.+++..|...+.     
T Consensus        87 ~~l~ag~~~~g~~e~r~~~i~~~~~~~-~~~~ilfide~h~l~~~g~~~-----------g-~~d~a~~Lkp~L~-----  148 (387)
T d1qvra2          87 GSLLAGAKYRGEFEERLKAVIQEVVQS-QGEVILFIDELHTVVGAGKAE-----------G-AVDAGNMLKPALA-----  148 (387)
T ss_dssp             -----------CHHHHHHHHHHHHHTT-CSSEEEEECCC-------------------------------HHHHH-----
T ss_pred             hhhhcccCcchhHHHHHHHHHHHhccC-CCceEEEeccHHHHhcCCCCC-----------C-cccHHHHHHHHHh-----
Confidence            555555555433321  2333334433 347899999999886654311           0 0123344443333     


Q ss_pred             CCCCcceeeeeEEEec
Q psy5595         218 EGRNGSITQIPILTMP  233 (293)
Q Consensus       218 ~~~~GSiT~i~~v~~~  233 (293)
                         .|.|..|++.+.+
T Consensus       149 ---rg~~~~I~~tT~~  161 (387)
T d1qvra2         149 ---RGELRLIGATTLD  161 (387)
T ss_dssp             ---TTCCCEEEEECHH
T ss_pred             ---CCCcceeeecCHH
Confidence               3788888887754

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.13  E-value=0.0014  Score=57.15  Aligned_cols=33  Identities=12%  Similarity=0.185  Sum_probs=28.5

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.+|+.++|+|++|+|||||+..|..-.
T Consensus        32 ~isl~i~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          32 GLTFTLRPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            344678999999999999999999999987643

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.13  E-value=0.00097  Score=54.10  Aligned_cols=27  Identities=11%  Similarity=0.287  Sum_probs=24.7

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ||=|+.|+||||+||||++..|+..-+
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            677999999999999999999998775

>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=96.11  E-value=0.0022  Score=54.06  Aligned_cols=27  Identities=7%  Similarity=0.154  Sum_probs=23.5

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +-.+.+++|+||+|||+|+..+|+...
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~   68 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHH
Confidence            445899999999999999999998764

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.10  E-value=0.0015  Score=57.86  Aligned_cols=38  Identities=16%  Similarity=0.322  Sum_probs=31.0

Q ss_pred             Cceee-eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          48 GKRAI-DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        48 GiraI-D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |-.++ |.=+.|-+|+.++|+|++|+|||||+..|+.-.
T Consensus        48 g~pvL~~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          48 GNPVLKNINLNIEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TCEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCeEEeCeEEEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            33343 445789999999999999999999999998644

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.08  E-value=0.00098  Score=53.18  Aligned_cols=25  Identities=16%  Similarity=0.306  Sum_probs=22.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      |+.|+|+||+||||++..|+..-+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~   26 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            6899999999999999999988754

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.08  E-value=0.02  Score=45.51  Aligned_cols=29  Identities=10%  Similarity=0.370  Sum_probs=25.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcccccC
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGLVKMP   91 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~~~~~   91 (293)
                      |+.|+|+||+||||++..|+..-+..++.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~   30 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIS   30 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            68999999999999999999987766554

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.06  E-value=0.0017  Score=56.37  Aligned_cols=36  Identities=14%  Similarity=0.229  Sum_probs=29.8

Q ss_pred             eeee-ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          50 RAID-VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        50 raID-~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++| .=+.+-+|+.++|+||+|+|||||+.+|+.-.
T Consensus        20 ~al~~vsl~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          20 TAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEcceeEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            3443 34679999999999999999999999987643

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.05  E-value=0.0016  Score=56.59  Aligned_cols=37  Identities=11%  Similarity=0.161  Sum_probs=30.7

Q ss_pred             ceeee-ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          49 KRAID-VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        49 iraID-~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..++| .=+.+-+|+..+|+|++|+|||||+..|+.-.
T Consensus        16 ~~al~~vsl~i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          16 VTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcceeeEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34554 44789999999999999999999999987643

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.05  E-value=0.0016  Score=50.46  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.|+||+||||++..++++.+
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999998863

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.0017  Score=49.57  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=21.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .|.|.|++|+||||+++.++...+
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            477899999999999999999874

>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=96.00  E-value=0.0042  Score=53.84  Aligned_cols=23  Identities=13%  Similarity=0.296  Sum_probs=21.9

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.||+|+|||+|+..||...+
T Consensus        44 iLL~Gp~GtGKT~l~~ala~~~~   66 (265)
T d1r7ra3          44 VLFYGPPGCGKTLLAKAIANECQ   66 (265)
T ss_dssp             EEEBCCTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCcchhHHHHHHHHhC
Confidence            99999999999999999999885

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.96  E-value=0.0016  Score=56.73  Aligned_cols=29  Identities=24%  Similarity=0.369  Sum_probs=26.3

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +.|.+|++++|+|++|+|||||+..|+.-
T Consensus        36 l~i~~Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          36 LKIPAGKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEECTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhcc
Confidence            56889999999999999999999988763

>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=95.93  E-value=0.0018  Score=56.07  Aligned_cols=33  Identities=24%  Similarity=0.291  Sum_probs=28.7

Q ss_pred             eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          53 DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        53 D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|-+|++++|+|++|+|||||+..|..-.
T Consensus        21 ~isl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          21 NINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            344678999999999999999999999988754

>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=95.93  E-value=0.0018  Score=56.75  Aligned_cols=28  Identities=18%  Similarity=0.158  Sum_probs=26.4

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.+.+|+.++|+|++|+|||||+..|+.
T Consensus        23 ~~i~~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          23 LQARAGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             eEEcCCCEEEEECCCCCcHHHHHHHHHc
Confidence            7899999999999999999999999864

>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=95.92  E-value=0.0017  Score=56.30  Aligned_cols=31  Identities=13%  Similarity=0.059  Sum_probs=27.6

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .=+.|-+|++++|+|++|+|||||+..|+.-
T Consensus        21 isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          21 ISFEAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3367999999999999999999999998764

>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=95.91  E-value=0.0026  Score=53.34  Aligned_cols=29  Identities=10%  Similarity=0.214  Sum_probs=25.3

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++...++|.||||+|||+++..||++.+
T Consensus        49 ~~~~~~lll~GPpG~GKTt~a~~la~~~~   77 (253)
T d1sxja2          49 SGVFRAAMLYGPPGIGKTTAAHLVAQELG   77 (253)
T ss_dssp             TTSCSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34556799999999999999999999985

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.86  E-value=0.0019  Score=56.12  Aligned_cols=34  Identities=18%  Similarity=0.263  Sum_probs=28.6

Q ss_pred             eee-eecccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          50 RAI-DVMNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        50 raI-D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +|+ |.=+.|-+|+..+|+|++|+|||||+..|+.
T Consensus        19 ~al~~vsl~i~~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             EEEEEEEEEECSSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             EEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            344 3347899999999999999999999998865

>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=95.85  E-value=0.023  Score=47.81  Aligned_cols=27  Identities=15%  Similarity=0.300  Sum_probs=24.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++-++++||+|+||||.+.-+|++..
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~   31 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQ   31 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            677889999999999999999998774

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.0075  Score=52.94  Aligned_cols=28  Identities=14%  Similarity=0.197  Sum_probs=24.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+-++++|+|+||+|||.|+..+++...
T Consensus        37 ~~k~n~lLVG~~GvGKTalv~~la~ri~   64 (268)
T d1r6bx2          37 RRKNNPLLVGESGVGKTAIAEGLAWRIV   64 (268)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CccCCcEEECCCCCcHHHHHHHHHHHHH
Confidence            4457899999999999999999998764

>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=95.80  E-value=0.0024  Score=51.67  Aligned_cols=27  Identities=19%  Similarity=0.311  Sum_probs=23.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |.+.+.|+||||+||||++..|+..-+
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            456789999999999999999998764

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.79  E-value=0.0025  Score=49.08  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=19.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.|+||+|||||+..|+++-
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            5789999999999999987764

>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=95.76  E-value=0.00095  Score=59.31  Aligned_cols=59  Identities=22%  Similarity=0.316  Sum_probs=48.4

Q ss_pred             EEecCCCcccccc--------ccccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCCC
Q psy5595         230 LTMPNDDFKVSAA--------REEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDVG  290 (293)
Q Consensus       230 v~~~~~d~~dpi~--------~~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~~  290 (293)
                      |++--||++-..-        -+++|.+++||...++.+..+|||+|+..  -||+|.++++.+++||-
T Consensus       170 VLv~~Dsltr~A~A~reis~~~ge~p~~~gyp~~l~~~~~~l~ERag~~~--~GSIT~i~~v~~~~~d~  236 (276)
T d2jdid3         170 VLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTK--KGSITSVQAIYVPADDL  236 (276)
T ss_dssp             EEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSCCS--SCCEEEEEEEECGGGCT
T ss_pred             EEEEEcchhHHHHHHHHHHHhcCCCCCcccCchhHHHHHHHHHHhhccCC--CcccceEEEEEccCCCC
Confidence            4444567765432        25899999999999999999999999754  59999999999999884

>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=95.75  E-value=0.0014  Score=57.17  Aligned_cols=35  Identities=20%  Similarity=0.303  Sum_probs=29.8

Q ss_pred             eee-eecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          50 RAI-DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        50 raI-D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .++ |.=+.|-+|+.++|+|++|+|||||+.+|+.-
T Consensus        19 ~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          19 VALDNVNINIENGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEeceEEEECCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            444 44578999999999999999999999999864

>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=95.73  E-value=0.0018  Score=55.88  Aligned_cols=32  Identities=13%  Similarity=0.143  Sum_probs=28.4

Q ss_pred             ecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          54 VMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        54 ~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .=+.|.+|+.++|+||+|+|||||+.+|+.-.
T Consensus        19 vs~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          19 LSLKVESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             eEEEECCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44789999999999999999999999997643

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.72  E-value=0.0029  Score=56.12  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=24.6

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++..+++.||||||||.|+..||+...
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhccc
Confidence            567889999999999999999999875

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.67  E-value=0.011  Score=49.45  Aligned_cols=97  Identities=11%  Similarity=0.032  Sum_probs=64.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccchhHHHHHHhhhhCCccccEEEEee
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLN  138 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~e~~~~~~~~l~~~g~~~~tvvv~s  138 (293)
                      -+|.-+.|.|.||+|||||+..+.+.-.+.             ..+.++.+-|.      .+++.+.            .
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~-------------~~~~~~~ldgD------~iR~~l~------------~   70 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRD-------------RRVHAYRLDGD------NIRFGLN------------K   70 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHH-------------HCCCEEEECHH------HHTTTTT------------T
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHh-------------cCceEEEEcch------HHHHhhc------------C
Confidence            367789999999999999999998765210             11223333332      1222221            1


Q ss_pred             CCCCchhhhhchHHHHHHHHHHHHHhcCCceEEEecchhHHHHHH-HHHh
Q psy5595         139 LANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEAL-REVS  187 (293)
Q Consensus       139 tsd~~~~~r~~a~~~a~tiAEyfr~~~G~~VLli~Dsltr~a~A~-reis  187 (293)
                      .-+-+...|.........+|.++.++ |..|++-..+..+..+.. |++.
T Consensus        71 ~l~ys~~~r~~~~~r~~~~a~~~~~~-g~~viv~~i~~~~~~R~~~r~i~  119 (208)
T d1m7ga_          71 DLGFSEADRNENIRRIAEVAKLFADS-NSIAITSFISPYRKDRDTARQLH  119 (208)
T ss_dssp             TCCSSHHHHHHHHHHHHHHHHHHHHT-TCEEEEECCCCCHHHHHHHHHHH
T ss_pred             CCCCChhHHHHHHHHHHHHHHHHhcc-CCceeeecccccHHHHHHHHHHh
Confidence            12235677888888888999999998 888888888887766553 5554

>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=95.67  E-value=0.0015  Score=52.25  Aligned_cols=27  Identities=11%  Similarity=0.127  Sum_probs=24.4

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ||..|.|.|.||+|||||+..++..-+
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~   44 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLV   44 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            678899999999999999999998764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=95.67  E-value=0.0072  Score=52.03  Aligned_cols=23  Identities=13%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.||||+|||+|+..|++..+
T Consensus        45 iLl~GppGtGKT~la~aia~~~~   67 (247)
T d1ixza_          45 VLLVGPPGVGKTHLARAVAGEAR   67 (247)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEecCCCCChhHHHHHHHHHcC
Confidence            79999999999999999998874

>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=95.65  E-value=0.0029  Score=53.03  Aligned_cols=23  Identities=9%  Similarity=0.133  Sum_probs=21.7

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.||||+|||+|+..|+....
T Consensus        35 ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            89999999999999999999875

>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=95.62  E-value=0.0026  Score=54.96  Aligned_cols=31  Identities=19%  Similarity=0.268  Sum_probs=27.4

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =+.+.+|+..+|+||+|+|||||+..|+--.
T Consensus        26 s~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          26 DLKVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999999999887543

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=95.58  E-value=0.014  Score=48.08  Aligned_cols=28  Identities=4%  Similarity=0.024  Sum_probs=24.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .....++|.||+|+|||+++..++++..
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~l~   68 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWELYK   68 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHh
Confidence            3456899999999999999999999874

>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=95.55  E-value=0.0035  Score=48.68  Aligned_cols=22  Identities=5%  Similarity=0.111  Sum_probs=20.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++|.|.+|+|||||+..|++..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999865

>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=95.52  E-value=0.0035  Score=52.40  Aligned_cols=24  Identities=25%  Similarity=0.515  Sum_probs=22.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++.||||+|||+++..+++..+
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~~~   60 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHELG   60 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999999875

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.51  E-value=0.0026  Score=52.89  Aligned_cols=24  Identities=8%  Similarity=0.080  Sum_probs=21.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++.||+|+|||+++..++++..
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHHHh
Confidence            479999999999999999998864

>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=95.51  E-value=0.025  Score=44.61  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..+.++-
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            78999999999999999988764

>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=95.50  E-value=0.044  Score=45.93  Aligned_cols=31  Identities=10%  Similarity=0.056  Sum_probs=23.6

Q ss_pred             cccCCce-eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          57 SIARGQK-IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        57 pigrGQr-~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      |+-+-.+ +.++|++|+||||.+.-||.+..+
T Consensus         5 p~~~~~~vi~lvGp~GvGKTTTiaKLA~~~~~   36 (207)
T d1ls1a2           5 PVLKDRNLWFLVGLQGSGKTTTAAKLALYYKG   36 (207)
T ss_dssp             CCCCSSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4433334 577899999999999999988753

>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=95.48  E-value=0.0029  Score=54.21  Aligned_cols=28  Identities=11%  Similarity=0.316  Sum_probs=25.7

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +.|-+|+-++|+|++|+|||||+..|+.
T Consensus        20 l~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          20 GEVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            3689999999999999999999998875

>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=95.42  E-value=0.0048  Score=50.52  Aligned_cols=29  Identities=24%  Similarity=0.357  Sum_probs=25.3

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      +|.=|+.|+|+||+||||++..|+..-+-
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~~g~   32 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKHFEL   32 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHHBCC
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHHHCC
Confidence            46669999999999999999999987653

>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=95.38  E-value=0.0024  Score=55.75  Aligned_cols=30  Identities=20%  Similarity=0.252  Sum_probs=26.5

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      =+.|-+|++++|+|++|+|||||+..|..-
T Consensus        38 sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          38 NLSIEKGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHHhc
Confidence            367899999999999999999999977653

>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=95.35  E-value=0.0025  Score=51.92  Aligned_cols=28  Identities=14%  Similarity=0.264  Sum_probs=24.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++..+.|+||||+||||++..|+..-+
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4567789999999999999999998775

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.33  E-value=0.016  Score=50.15  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=22.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+++.||||||||+|+..||+..+
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~~~   70 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGEAK   70 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEeeCCCCCCccHHHHHHHHHcC
Confidence            489999999999999999999875

>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=95.30  E-value=0.0043  Score=47.22  Aligned_cols=24  Identities=4%  Similarity=0.052  Sum_probs=21.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .|++|+|++++|||+|+..+..+-
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999988753

>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=95.27  E-value=0.0051  Score=47.07  Aligned_cols=23  Identities=9%  Similarity=0.053  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78899999999999999998764

>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=95.24  E-value=0.0042  Score=53.95  Aligned_cols=36  Identities=19%  Similarity=0.246  Sum_probs=29.9

Q ss_pred             eee-eecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          50 RAI-DVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        50 raI-D~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++ |.=+.+.+|+-.+|+|++|+|||||+..|+--.
T Consensus        18 ~aL~~vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          18 KALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEcceEEEECCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            444 344689999999999999999999999987643

>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=95.23  E-value=0.0034  Score=50.77  Aligned_cols=25  Identities=20%  Similarity=0.085  Sum_probs=22.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++.|.||||+||||++..|+..-+-
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~~   29 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQL   29 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            6899999999999999999988754

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=95.23  E-value=0.0036  Score=48.90  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=21.5

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |.=+.|.|++|+||||++..++++.+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg   29 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPG   29 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34467889999999999999987654

>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=95.23  E-value=0.005  Score=49.18  Aligned_cols=25  Identities=20%  Similarity=0.224  Sum_probs=22.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      |+.|+|+||+||||++..|+..-+.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~   26 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGI   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            6899999999999999999988753

>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=95.20  E-value=0.057  Score=45.50  Aligned_cols=28  Identities=7%  Similarity=0.038  Sum_probs=23.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+-.-+.++||+|+||||.+.-||.+..
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~   36 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV   36 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4455678899999999999999998764

>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=95.17  E-value=0.0054  Score=49.16  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |+.|+|+||+||||++..|+..-+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            689999999999999999998875

>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=95.14  E-value=0.0062  Score=47.42  Aligned_cols=26  Identities=12%  Similarity=0.235  Sum_probs=22.5

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++=+.|.|++|+||||++..++...+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44567899999999999999999875

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.12  E-value=0.02  Score=49.03  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=21.7

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++.||||+|||+|+..+++..+
T Consensus        41 iLL~GppGtGKT~l~~ala~~~~   63 (258)
T d1e32a2          41 ILLYGPPGTGKTLIARAVANETG   63 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             eEEecCCCCCchHHHHHHHHHhC
Confidence            89999999999999999999875

>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=95.11  E-value=0.059  Score=45.40  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=20.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++||+|+||||.+.-+|++..
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            66789999999999999998764

>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=95.07  E-value=0.0061  Score=49.07  Aligned_cols=25  Identities=16%  Similarity=0.287  Sum_probs=22.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++.|+||||+||||++..|+..-+.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~   27 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGY   27 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999988753

>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=95.06  E-value=0.0055  Score=52.80  Aligned_cols=30  Identities=13%  Similarity=0.150  Sum_probs=27.0

Q ss_pred             ccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          56 NSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        56 ~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.+-+|+-.+|+|++|+|||||+..|+.-.
T Consensus        23 ~~v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          23 FEIEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            578999999999999999999999887644

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=95.02  E-value=0.0063  Score=47.16  Aligned_cols=23  Identities=9%  Similarity=-0.020  Sum_probs=20.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.|++|+||||++..+++..+
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            56679999999999999999864

>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=94.90  E-value=0.0075  Score=47.92  Aligned_cols=32  Identities=16%  Similarity=0.228  Sum_probs=25.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhcccccCCc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAGLVKMPGK   93 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~   93 (293)
                      +.+.|+|++|+||||++..++...+...+.+|
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            56789999999999999999998875433333

>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=94.84  E-value=0.01  Score=51.43  Aligned_cols=34  Identities=9%  Similarity=0.092  Sum_probs=27.7

Q ss_pred             eeeecccccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          51 AIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        51 aID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+|.=+.++ ++.++|+||+|+|||||+..|+.-.
T Consensus        15 ~~~vs~~~~-~e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          15 RLNVDFEMG-RDYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEEEEEC-SSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEEEeC-CEEEEEECCCCChHHHHHHHHHcCC
Confidence            357667776 4688999999999999999998743

>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=94.78  E-value=0.0083  Score=47.56  Aligned_cols=25  Identities=16%  Similarity=0.280  Sum_probs=22.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++.|+|+||+||||++..++...+-
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999998863

>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=94.75  E-value=0.0073  Score=46.36  Aligned_cols=23  Identities=17%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+-
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999988764

>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=94.71  E-value=0.11  Score=43.49  Aligned_cols=26  Identities=12%  Similarity=0.042  Sum_probs=17.5

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -.-+.++||+|+||||.+.-||.+..
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~   37 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYK   37 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34467789999999999999988764

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=94.68  E-value=0.04  Score=49.29  Aligned_cols=34  Identities=6%  Similarity=0.107  Sum_probs=27.9

Q ss_pred             eeeccc-ccCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          52 IDVMNS-IARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        52 ID~l~p-igrGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++-+.| -|+..+++|.|+||+|||||+..+++.-
T Consensus        44 l~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          44 LDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            444455 4689999999999999999999998765

>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=94.67  E-value=0.0089  Score=48.34  Aligned_cols=25  Identities=8%  Similarity=0.194  Sum_probs=22.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..+.|+||||+||||++..|+..-+
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999999998765

>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=94.66  E-value=0.0085  Score=48.55  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      =|.|.||||+||+|++..|+..-+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            368999999999999999999885

>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=94.62  E-value=0.011  Score=48.92  Aligned_cols=28  Identities=11%  Similarity=0.106  Sum_probs=23.9

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++-..++|.||+|+|||+++..|++...
T Consensus        43 ~~~~~lll~Gp~G~GKTtla~~iak~l~   70 (231)
T d1iqpa2          43 GSMPHLLFAGPPGVGKTTAALALARELF   70 (231)
T ss_dssp             TCCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            3445689999999999999999998763

>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=94.59  E-value=0.0091  Score=47.15  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |+.++|++|+||||++..++...+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhC
Confidence            678899999999999999998875

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=94.59  E-value=0.0076  Score=50.16  Aligned_cols=23  Identities=9%  Similarity=0.174  Sum_probs=19.6

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.||||+|||+++..++++..
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHH
Confidence            34569999999999999998763

>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=94.52  E-value=0.0078  Score=50.08  Aligned_cols=25  Identities=4%  Similarity=0.110  Sum_probs=22.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -+.++|.||+|+|||+++..++++.
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3468999999999999999999985

>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=94.45  E-value=0.011  Score=46.01  Aligned_cols=23  Identities=4%  Similarity=0.060  Sum_probs=20.6

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|.|++|+||||++..|+....
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            67889999999999999998764

>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=94.43  E-value=0.01  Score=46.93  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.5

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|-|++|+|||||+..|...-+
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            67999999999999999987654

>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=94.30  E-value=0.12  Score=41.03  Aligned_cols=23  Identities=9%  Similarity=0.095  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++.|+|++++|||+|+..+..+-
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999998763

>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=94.27  E-value=0.0086  Score=46.67  Aligned_cols=26  Identities=4%  Similarity=0.070  Sum_probs=21.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      -|--|++|+|.+|+|||+|+..+..+
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34558999999999999999987553

>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=94.06  E-value=0.19  Score=40.28  Aligned_cols=23  Identities=0%  Similarity=-0.028  Sum_probs=20.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +++|+|++++|||+|+..+..+-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999998743

>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=94.05  E-value=0.015  Score=47.71  Aligned_cols=24  Identities=4%  Similarity=0.216  Sum_probs=21.6

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ..++|.||+|+|||+|+..++++.
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHHH
Confidence            458999999999999999999875

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.96  E-value=0.014  Score=45.82  Aligned_cols=23  Identities=13%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|||||+|+..++.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999998764

>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=93.95  E-value=0.014  Score=45.91  Aligned_cols=23  Identities=9%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999988654

>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=93.89  E-value=0.016  Score=47.23  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++.|-||||+||||++..|+..-+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            467779999999999999999875

>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=93.86  E-value=0.014  Score=45.70  Aligned_cols=23  Identities=9%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+.++.
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999888753

>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=93.83  E-value=0.014  Score=45.84  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|||||+|+..+..+.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999998764

>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=93.83  E-value=0.015  Score=45.68  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999988754

>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=93.76  E-value=0.017  Score=46.23  Aligned_cols=23  Identities=13%  Similarity=0.148  Sum_probs=20.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+.|.||+|||||+..|++...
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999998664

>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=93.73  E-value=0.015  Score=45.56  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            89999999999999999988754

>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=93.68  E-value=0.016  Score=45.42  Aligned_cols=23  Identities=13%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|||||+|+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999998754

>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=93.68  E-value=0.021  Score=45.71  Aligned_cols=25  Identities=4%  Similarity=0.182  Sum_probs=21.9

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.||+|+|||||+..+...-
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            6678899999999999999988764

>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=93.68  E-value=0.016  Score=45.51  Aligned_cols=23  Identities=13%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+-
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            68999999999999999988654

>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=93.67  E-value=0.016  Score=45.60  Aligned_cols=23  Identities=4%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..+..+-
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999998754

>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=93.65  E-value=0.019  Score=45.16  Aligned_cols=23  Identities=4%  Similarity=-0.070  Sum_probs=20.2

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.|.+|+|||||+..+++.-.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~   26 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAV   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            57999999999999999988653

>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=93.63  E-value=0.02  Score=47.02  Aligned_cols=25  Identities=8%  Similarity=0.220  Sum_probs=22.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.+++.||+|+|||+++..|+++..
T Consensus        36 ~~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          36 PHLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChhHHHHHHHHHhh
Confidence            3589999999999999999999864

>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=93.63  E-value=0.017  Score=46.12  Aligned_cols=23  Identities=17%  Similarity=0.352  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|.+|||||+|+..+.++-
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999988753

>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=93.59  E-value=0.018  Score=44.87  Aligned_cols=23  Identities=13%  Similarity=0.314  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..+..+-
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999998753

>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=93.58  E-value=0.017  Score=45.06  Aligned_cols=23  Identities=4%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+-
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999988654

>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=93.58  E-value=0.017  Score=45.53  Aligned_cols=23  Identities=9%  Similarity=0.310  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            79999999999999999887753

>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=93.57  E-value=0.017  Score=45.79  Aligned_cols=23  Identities=13%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999988754

>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=93.57  E-value=0.014  Score=45.81  Aligned_cols=23  Identities=13%  Similarity=0.501  Sum_probs=20.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+.
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999887643

>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=93.57  E-value=0.12  Score=41.17  Aligned_cols=21  Identities=5%  Similarity=0.181  Sum_probs=19.4

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|+|.+|+|||||+..|.+
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            689999999999999999974

>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=93.47  E-value=0.019  Score=45.39  Aligned_cols=23  Identities=9%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+.++.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58999999999999999998754

>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=93.46  E-value=0.019  Score=45.27  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..++.+.
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            68999999999999999988754

>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=93.45  E-value=0.018  Score=45.37  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999998754

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.42  E-value=0.019  Score=44.70  Aligned_cols=22  Identities=5%  Similarity=0.138  Sum_probs=19.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+..+
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            7899999999999999988654

>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=93.37  E-value=0.015  Score=46.44  Aligned_cols=22  Identities=9%  Similarity=0.187  Sum_probs=19.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|++|+|||+|+..+.++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            6899999999999999988754

>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=93.29  E-value=0.02  Score=44.89  Aligned_cols=23  Identities=13%  Similarity=0.289  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999987654

>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=93.29  E-value=0.051  Score=48.65  Aligned_cols=24  Identities=4%  Similarity=0.087  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ..++.||||||||.|+..++...+
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~~  148 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEALG  148 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHHhc
Confidence            355579999999999999999875

>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=93.27  E-value=0.023  Score=45.92  Aligned_cols=22  Identities=14%  Similarity=0.212  Sum_probs=19.8

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|.||+|+|||+|+..++.+-
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999998874

>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=93.27  E-value=0.021  Score=44.54  Aligned_cols=26  Identities=15%  Similarity=0.128  Sum_probs=22.4

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .+-=|++|+|.+|+|||+|+..+..+
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            45568999999999999999988754

>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=93.26  E-value=0.021  Score=44.97  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+.++.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            68999999999999999988764

>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=93.24  E-value=0.021  Score=44.61  Aligned_cols=23  Identities=4%  Similarity=0.027  Sum_probs=20.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999987643

>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=93.17  E-value=0.022  Score=45.47  Aligned_cols=23  Identities=9%  Similarity=0.083  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|||||+|+.++..+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            78999999999999999988754

>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=93.06  E-value=0.022  Score=45.05  Aligned_cols=23  Identities=9%  Similarity=0.066  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+..+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999888764

>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=93.02  E-value=0.11  Score=42.47  Aligned_cols=28  Identities=11%  Similarity=0.058  Sum_probs=23.7

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -++++.+|.++.|+|||.++..++.+..
T Consensus        83 ~~~~~~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          83 LVDKRGCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             TTTSEEEEEESSSTTHHHHHHHHHHHSC
T ss_pred             HhCCCcEEEeCCCCCceehHHhHHHHhc
Confidence            3678899999999999999888887653

>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=93.02  E-value=0.023  Score=44.49  Aligned_cols=23  Identities=13%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|||||+|+..+..+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            68999999999999999988764

>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=93.01  E-value=0.024  Score=44.74  Aligned_cols=23  Identities=13%  Similarity=0.301  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++|+|||+|+..+..+-
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            89999999999999999987643

>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=92.99  E-value=0.027  Score=45.81  Aligned_cols=23  Identities=4%  Similarity=0.231  Sum_probs=20.2

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.|+||+|+|||||+.+++..-.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            57999999999999999988753

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.99  E-value=0.024  Score=44.85  Aligned_cols=22  Identities=14%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..+..+
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            7899999999999999988764

>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=92.97  E-value=0.023  Score=44.69  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+..+.
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~   29 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKK   29 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999987653

>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=92.95  E-value=0.028  Score=50.17  Aligned_cols=27  Identities=11%  Similarity=0.183  Sum_probs=24.3

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++.-+++|.|+||+|||||+..+++..
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            577889999999999999999998764

>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=92.91  E-value=0.024  Score=44.30  Aligned_cols=23  Identities=13%  Similarity=0.296  Sum_probs=20.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..++.+-
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68899999999999999987653

>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=92.87  E-value=0.027  Score=45.86  Aligned_cols=24  Identities=17%  Similarity=0.250  Sum_probs=21.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      ++|-|++|+|||||+..|+..-++
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhch
Confidence            789999999999999999887654

>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=92.79  E-value=0.028  Score=45.92  Aligned_cols=23  Identities=13%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             eeEecCCCCChhHHHHHHHHHhc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      ++|.|++|+|||||+..|.++..
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            57999999999999999988763

>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=92.75  E-value=0.026  Score=45.17  Aligned_cols=23  Identities=9%  Similarity=0.109  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|++|+|||+|+..+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            68999999999999999988754

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.71  E-value=0.028  Score=44.15  Aligned_cols=23  Identities=13%  Similarity=0.225  Sum_probs=20.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++|+|++++|||+|+..+..+-
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~   30 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGA   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            79999999999999999887753

>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=92.58  E-value=0.033  Score=43.29  Aligned_cols=22  Identities=9%  Similarity=0.152  Sum_probs=19.3

Q ss_pred             eEecCCCCChhHHHHHHHHHhc
Q psy5595          65 PIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        65 ~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .|.|++|+||||++..++..-.
T Consensus         5 vi~G~~GsGKTT~~~~La~~L~   26 (194)
T d1nksa_           5 IVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHH
Confidence            4679999999999999998764

>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=92.54  E-value=0.02  Score=50.31  Aligned_cols=25  Identities=8%  Similarity=0.102  Sum_probs=21.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .|+.++|.|+||+|||+|+..++.-
T Consensus        27 ~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_          27 GIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             CCCeEEEECCCCccHHHHHHHHHHh
Confidence            4568999999999999999988863

>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=92.54  E-value=0.029  Score=43.95  Aligned_cols=21  Identities=10%  Similarity=0.219  Sum_probs=18.7

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |++++|++|+|||+|+..+..
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            688999999999999987754

>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=92.51  E-value=0.03  Score=47.36  Aligned_cols=21  Identities=10%  Similarity=0.143  Sum_probs=16.9

Q ss_pred             ceeeEecCCCCChhHHHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~   82 (293)
                      .-.+|+|+||+|||+++.+-+
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv   35 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKI   35 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHH
Confidence            347999999999998876543

>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=92.43  E-value=0.032  Score=44.20  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+.++.
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            58899999999999999988754

>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=92.42  E-value=0.034  Score=43.67  Aligned_cols=22  Identities=18%  Similarity=0.296  Sum_probs=19.3

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            7899999999999999987643

>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=92.39  E-value=0.03  Score=52.21  Aligned_cols=42  Identities=17%  Similarity=0.310  Sum_probs=31.1

Q ss_pred             CccccCCCCccccCCCceeeeecccccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          33 GERSFTPRDLIGDSSGKRAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        33 p~~r~~p~e~l~~~TGiraID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -|.|.+.++.+  .-.         +. -.+++++||+|||||.|+..+|+-++
T Consensus        33 hyrR~~~~~~~--~~e---------i~-ksNILliGPTGvGKTlLAr~LAk~l~   74 (443)
T d1g41a_          33 RWRRMQLQEPL--RHE---------VT-PKNILMIGPTGVGKTEIARRLAKLAN   74 (443)
T ss_dssp             HHHHHHSCTTT--TTT---------CC-CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhhccccc--ccc---------cc-cccEEEECCCCCCHHHHHHHHHHHhC
Confidence            36777666555  211         22 35999999999999999999998664

>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=92.39  E-value=0.042  Score=49.81  Aligned_cols=30  Identities=13%  Similarity=0.132  Sum_probs=26.6

Q ss_pred             cccCCceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          57 SIARGQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        57 pigrGQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+-++..+++.||||+|||+++..|++..+
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~  179 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCG  179 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            345677899999999999999999999986

>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=92.35  E-value=0.027  Score=43.38  Aligned_cols=24  Identities=13%  Similarity=0.225  Sum_probs=21.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHH
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |=|++|+|.+++|||+|+..+..+
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            448999999999999999988754

>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=92.28  E-value=0.035  Score=43.76  Aligned_cols=23  Identities=13%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..++.+.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999998754

>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=92.21  E-value=0.022  Score=48.74  Aligned_cols=33  Identities=12%  Similarity=0.245  Sum_probs=28.7

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +|.|...-+|+...+.|.+|+|||+|+..+.-+
T Consensus        86 ~~~L~~~l~~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKGKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcCCeEEEECCCCCCHHHHHHhhcch
Confidence            677777779999999999999999999988543

>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=92.10  E-value=0.035  Score=44.31  Aligned_cols=23  Identities=9%  Similarity=0.172  Sum_probs=20.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|++|+|||+|+..+..+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            68999999999999999988764

>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=92.09  E-value=0.034  Score=44.81  Aligned_cols=22  Identities=9%  Similarity=0.268  Sum_probs=20.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..+..+
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            6899999999999999998864

>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=91.95  E-value=0.025  Score=44.62  Aligned_cols=23  Identities=13%  Similarity=0.284  Sum_probs=9.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.|+|.+|+|||+|+..+..+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEEECCCCC-------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            79999999999999999877543

>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=91.84  E-value=0.044  Score=43.25  Aligned_cols=22  Identities=9%  Similarity=0.277  Sum_probs=19.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.++|++|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            6899999999999999987643

>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=91.79  E-value=0.04  Score=44.20  Aligned_cols=23  Identities=4%  Similarity=0.043  Sum_probs=20.6

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+..+-
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999999888654

>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=91.74  E-value=0.044  Score=43.82  Aligned_cols=24  Identities=4%  Similarity=0.127  Sum_probs=21.1

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -|+.++|++|+|||+|+..+..+-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            389999999999999999887753

>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=91.66  E-value=0.04  Score=40.74  Aligned_cols=23  Identities=9%  Similarity=0.040  Sum_probs=19.9

Q ss_pred             ccCCceeeEecCCCCChhHHHHH
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~   80 (293)
                      +.+||+..|.+++|+|||..+..
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~   26 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLP   26 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHH
T ss_pred             HHcCCcEEEEcCCCCChhHHHHH
Confidence            57899999999999999976653

>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=91.64  E-value=0.024  Score=44.85  Aligned_cols=23  Identities=9%  Similarity=0.143  Sum_probs=18.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+.++|++|+|||+|+..+..+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~~   27 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTGE   27 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC---
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            78999999999999998776653

>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=91.53  E-value=0.051  Score=43.84  Aligned_cols=22  Identities=14%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.|+||+|+|||+|+..+..+-
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6789999999999999988764

>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=91.48  E-value=0.032  Score=43.83  Aligned_cols=22  Identities=5%  Similarity=0.111  Sum_probs=19.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .++|+|.+++|||+|+..|.++
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=91.34  E-value=0.049  Score=43.19  Aligned_cols=20  Identities=20%  Similarity=0.207  Sum_probs=18.4

Q ss_pred             eeeEecCCCCChhHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~   82 (293)
                      |++|+|++|+|||+|+..+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            78999999999999999873

>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=91.30  E-value=0.058  Score=42.44  Aligned_cols=24  Identities=13%  Similarity=0.158  Sum_probs=21.4

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      |++++|+.|+|||+|+..+.....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~~   27 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIHG   27 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999877653

>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=91.28  E-value=0.032  Score=43.39  Aligned_cols=26  Identities=4%  Similarity=0.082  Sum_probs=21.3

Q ss_pred             ccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          58 IARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        58 igrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      --+.-|++|+|.+++|||+|+..|..
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhC
Confidence            33466799999999999999987744

>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=91.15  E-value=0.022  Score=44.95  Aligned_cols=22  Identities=9%  Similarity=0.084  Sum_probs=19.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |+.|+|++|+|||+|+..+..+
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7899999999999999987654

>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=91.12  E-value=0.072  Score=44.06  Aligned_cols=25  Identities=8%  Similarity=0.201  Sum_probs=21.6

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.=+.|.||+|+|||+|+..+...-
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            6667899999999999999888764

>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=91.11  E-value=0.054  Score=49.00  Aligned_cols=24  Identities=13%  Similarity=0.274  Sum_probs=21.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +++++||.|||||.|+..+|....
T Consensus        70 niLfiGPTGvGKTElAk~LA~~~~   93 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLAKHLD   93 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ceeeeCCCCccHHHHHHHHHhhcc
Confidence            589999999999999999998764

>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=91.04  E-value=0.058  Score=42.47  Aligned_cols=22  Identities=14%  Similarity=0.261  Sum_probs=19.8

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|.+++|||+|+..+...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            7899999999999999888753

>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=90.97  E-value=0.061  Score=41.99  Aligned_cols=21  Identities=5%  Similarity=0.229  Sum_probs=19.1

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|+|.+|+|||+|+..|..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999998864

>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=90.76  E-value=0.043  Score=43.44  Aligned_cols=21  Identities=0%  Similarity=0.153  Sum_probs=18.8

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|+|.+++|||+|+..+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999988754

>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=90.68  E-value=0.81  Score=35.80  Aligned_cols=22  Identities=9%  Similarity=0.187  Sum_probs=19.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ++.|+|.+++|||||+..|...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            6899999999999999999753

>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=90.57  E-value=0.078  Score=41.48  Aligned_cols=23  Identities=17%  Similarity=0.143  Sum_probs=20.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |++++|+.|+|||+|+.++....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            78999999999999999886653

>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=90.40  E-value=0.027  Score=43.33  Aligned_cols=22  Identities=5%  Similarity=0.243  Sum_probs=20.2

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      |++|+|.+++|||+|+..|..+
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999998765

>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=90.39  E-value=0.075  Score=45.40  Aligned_cols=19  Identities=16%  Similarity=0.293  Sum_probs=16.5

Q ss_pred             ceeeEecCCCCChhHHHHH
Q psy5595          62 QKIPIFSAAGLPHNEIAAQ   80 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~   80 (293)
                      ..++|.|+||+|||+.+.+
T Consensus        25 g~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHH
Confidence            4589999999999988875

>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=90.38  E-value=0.085  Score=47.54  Aligned_cols=25  Identities=12%  Similarity=0.064  Sum_probs=20.0

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHh
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +.-..|.||||+|||+++..+....
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHH
Confidence            4568899999999999987665443

>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=90.30  E-value=0.028  Score=48.24  Aligned_cols=33  Identities=6%  Similarity=0.108  Sum_probs=27.2

Q ss_pred             eeecccccCCceeeEecCCCCChhHHHHHHHHH
Q psy5595          52 IDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        52 ID~l~pigrGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +|.|...-+|+...+.|.+|+|||+|+..+.-.
T Consensus        88 l~~L~~~l~~~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          88 LADIIPHFQDKTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             CTTTGGGGTTSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             HHHHHHhhccceEEEECCCCccHHHHHHhhccH
Confidence            456667778999999999999999999877543

>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=90.26  E-value=0.47  Score=39.84  Aligned_cols=26  Identities=12%  Similarity=-0.055  Sum_probs=21.4

Q ss_pred             CCce-eeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQK-IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr-~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .++| ..|.||...|||+++.+|+..+
T Consensus        39 ~~~~~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          39 PQRRMLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEeccCchhhHHHHHHHHHHH
Confidence            3444 6788999999999999988766

>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=90.01  E-value=0.087  Score=43.50  Aligned_cols=25  Identities=12%  Similarity=0.109  Sum_probs=21.5

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .|++|+|++|+|||+|+.++..+--
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~~   31 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILHV   31 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCc
Confidence            5899999999999999998866543

>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=89.87  E-value=0.06  Score=41.94  Aligned_cols=21  Identities=14%  Similarity=0.260  Sum_probs=19.2

Q ss_pred             eeEecCCCCChhHHHHHHHHH
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      ++|+|.+++|||+|+..+.++
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999864

>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=89.79  E-value=0.83  Score=41.13  Aligned_cols=21  Identities=5%  Similarity=0.164  Sum_probs=19.2

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      +++|+|.+|+|||+|+..|..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            699999999999999998863

>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=89.77  E-value=0.047  Score=43.13  Aligned_cols=29  Identities=14%  Similarity=0.140  Sum_probs=22.8

Q ss_pred             cccccCCceeeEecCCCCChhHHHHHHHH
Q psy5595          55 MNSIARGQKIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        55 l~pigrGQr~~I~g~~G~GKT~L~~~I~~   83 (293)
                      |++-.|-=|+.++|++|+|||+|+..+..
T Consensus        11 l~~~~k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          11 LWGSNKELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             GTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HhCCCceEEEEEECCCCCCHHHHHHHHhc
Confidence            44445556889999999999999987743

>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=89.76  E-value=0.084  Score=42.95  Aligned_cols=26  Identities=19%  Similarity=0.355  Sum_probs=22.8

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .|+-++|.|++|+|||+|+.++++.-
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            58889999999999999999887763

>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=89.29  E-value=0.093  Score=46.60  Aligned_cols=26  Identities=12%  Similarity=0.170  Sum_probs=22.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .|.+++|.|+.|+||||++..++...
T Consensus       165 ~~~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         165 IGKNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             HTCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             hCCCEEEEeeccccchHHHHHHhhhc
Confidence            46789999999999999999988765

>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=89.25  E-value=0.093  Score=46.18  Aligned_cols=25  Identities=16%  Similarity=0.356  Sum_probs=22.0

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +..++.||+|+|||.|+..|++..+
T Consensus        53 ~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          53 GSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCcchhHHHHHHHHhhcc
Confidence            3578999999999999999999764

>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=89.21  E-value=0.064  Score=42.26  Aligned_cols=21  Identities=10%  Similarity=0.211  Sum_probs=18.8

Q ss_pred             eeeEecCCCCChhHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICR   83 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~   83 (293)
                      .++|+|.+++|||+|+..+.+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998864

>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=88.42  E-value=0.097  Score=41.12  Aligned_cols=22  Identities=5%  Similarity=0.113  Sum_probs=19.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .++|+|.+|+|||+|+..+..+
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988764

>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=88.42  E-value=0.14  Score=42.61  Aligned_cols=25  Identities=12%  Similarity=0.174  Sum_probs=21.8

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++|.||+|+|||+++..+++...
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eeEEEECCCCCcHHHHHHHHHHHhc
Confidence            3478899999999999999998874

>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=88.40  E-value=0.096  Score=42.95  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=22.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .|.-++|.|++|+|||+|+.+++.+
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            5778999999999999999988765

>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=88.23  E-value=0.13  Score=42.01  Aligned_cols=25  Identities=20%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHH
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      .|.-++|.|++|+|||+|+.+++..
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4667899999999999999988765

>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=88.03  E-value=0.12  Score=41.07  Aligned_cols=19  Identities=26%  Similarity=0.260  Sum_probs=16.8

Q ss_pred             eeEecCCCCChhHHHHHHH
Q psy5595          64 IPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~   82 (293)
                      +||.|++|+||||++..+.
T Consensus         6 IgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6799999999999988773

>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=87.75  E-value=1.3  Score=35.79  Aligned_cols=58  Identities=14%  Similarity=0.102  Sum_probs=38.1

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCcc--chhHHHHHHhhh
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVN--METARFFKQDFE  125 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer--~e~~~~~~~~l~  125 (293)
                      +.+..+++-|++|+|||+++..+++...+.        +. .+.|...+-.-|..  -++++++.+.+.
T Consensus        13 ~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~--------~~-~h~D~~~i~~~~~~I~Id~IR~i~~~~~   72 (198)
T d2gnoa2          13 SEGISILINGEDLSYPREVSLELPEYVEKF--------PP-KASDVLEIDPEGENIGIDDIRTIKDFLN   72 (198)
T ss_dssp             CSSEEEEEECSSSSHHHHHHHHHHHHHHTS--------CC-CTTTEEEECCSSSCBCHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHhcc--------cc-CCCCEEEEeCCcCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999977431        11 13445444433322  356666665554

>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=87.35  E-value=0.16  Score=44.62  Aligned_cols=22  Identities=18%  Similarity=0.087  Sum_probs=18.8

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      +||-|++|+|||||+..|....
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHH
Confidence            5788999999999999886654

>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=86.94  E-value=0.79  Score=38.22  Aligned_cols=23  Identities=13%  Similarity=-0.054  Sum_probs=20.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -..|.||...|||+++.+|+-.+
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHH
Confidence            47899999999999999887765

>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=86.55  E-value=0.22  Score=40.77  Aligned_cols=26  Identities=12%  Similarity=0.153  Sum_probs=22.4

Q ss_pred             CceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          61 GQKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        61 GQr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .+.+++.||+|+|||+++..+++..-
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcc
Confidence            34589999999999999999998763

>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=85.98  E-value=0.28  Score=39.31  Aligned_cols=29  Identities=7%  Similarity=0.123  Sum_probs=26.2

Q ss_pred             cCCceeeEecCCCCChhHHHHHHHHHhcc
Q psy5595          59 ARGQKIPIFSAAGLPHNEIAAQICRQAGL   87 (293)
Q Consensus        59 grGQr~~I~g~~G~GKT~L~~~I~~~~~~   87 (293)
                      .+|.-+++.|+-|+|||++++.|++..+.
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            56788999999999999999999998864

>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=85.66  E-value=0.28  Score=39.55  Aligned_cols=26  Identities=15%  Similarity=0.129  Sum_probs=23.0

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ||.=|.|-|+.|+||||++..+...-
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            67788899999999999999998765

>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=85.22  E-value=0.25  Score=40.51  Aligned_cols=24  Identities=13%  Similarity=-0.040  Sum_probs=21.0

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      .++|.|+.|+||||++..++..-+
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~g   26 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNYS   26 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC
Confidence            479999999999999999987654

>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=85.08  E-value=0.21  Score=40.47  Aligned_cols=19  Identities=16%  Similarity=0.197  Sum_probs=16.9

Q ss_pred             eeEecCCCCChhHHHHHHH
Q psy5595          64 IPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~   82 (293)
                      +||.|+.|+||||++..+.
T Consensus         5 IgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999988664

>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=84.70  E-value=0.22  Score=43.74  Aligned_cols=23  Identities=13%  Similarity=0.304  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .+++.||+|+|||.|+..|++..
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHHHh
Confidence            46778999999999999999875

>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=84.63  E-value=0.34  Score=43.02  Aligned_cols=25  Identities=8%  Similarity=0.130  Sum_probs=21.4

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHhc
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      +.++|+|++|+|||+++..++.|.-
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~   75 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGL   75 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHH
Confidence            3499999999999999988877764

>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=84.57  E-value=0.25  Score=43.63  Aligned_cols=24  Identities=13%  Similarity=0.069  Sum_probs=20.5

Q ss_pred             eeeEecCCCCChhHHHHHHHHHhc
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQAG   86 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~~   86 (293)
                      -+||-|++|+||||++..|.....
T Consensus        82 iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          82 IISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCCcHHHHHHHHHHh
Confidence            378999999999999998877653

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=84.27  E-value=0.061  Score=44.25  Aligned_cols=34  Identities=15%  Similarity=0.130  Sum_probs=25.8

Q ss_pred             eeEecCCCCChhHHHHHHHHHhcccccCCccccCCCCCceEEEEEecCccc
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQAGLVKMPGKSVLDDSEDNFAIVFAAMGVNM  114 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~~~~~~~~~~~~~~~~~~~~~V~~~iGer~  114 (293)
                      ++|.||+++|||..+-+++.+.                 ..++|++.++-.
T Consensus         2 iLVtGGarSGKS~~AE~l~~~~-----------------~~~~YiAT~~~~   35 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGDA-----------------PQVLYIATSQIL   35 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSC-----------------SSEEEEECCCC-
T ss_pred             EEEECCCCccHHHHHHHHHhcC-----------------CCcEEEEccCCC
Confidence            5899999999999998875221                 246899988753

>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=83.75  E-value=0.15  Score=40.35  Aligned_cols=23  Identities=9%  Similarity=0.028  Sum_probs=19.9

Q ss_pred             eeeEecCCCCChhHHHHHHHHHh
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      -|.|-|+.|+||||++..|++.-
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887654

>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=82.24  E-value=0.17  Score=41.02  Aligned_cols=26  Identities=15%  Similarity=0.093  Sum_probs=22.1

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |+=.|.|-|+-|+||||++..|+..-
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            35578999999999999999888754

>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=82.23  E-value=0.52  Score=35.05  Aligned_cols=26  Identities=8%  Similarity=-0.017  Sum_probs=20.2

Q ss_pred             CCceeeEecCCCCChhHHHHHHHHHh
Q psy5595          60 RGQKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        60 rGQr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      .-|+.+|.+|.|+|||.++..++.+.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~   32 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ   32 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc
Confidence            35778889999999999887665443

>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=82.20  E-value=0.1  Score=40.01  Aligned_cols=22  Identities=9%  Similarity=0.080  Sum_probs=18.7

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      --.|+|+.|+|||+|+..|.--
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4578899999999999988754

>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=82.10  E-value=0.23  Score=43.52  Aligned_cols=22  Identities=9%  Similarity=0.141  Sum_probs=16.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      ++|-|++|+||||++..+.+.-
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHH
Confidence            7999999999999999776654

>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=82.02  E-value=0.39  Score=38.96  Aligned_cols=19  Identities=11%  Similarity=0.263  Sum_probs=16.8

Q ss_pred             eeEecCCCCChhHHHHHHH
Q psy5595          64 IPIFSAAGLPHNEIAAQIC   82 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~   82 (293)
                      +||.|+.|+||||++..+.
T Consensus         6 IgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHH
Confidence            6899999999999998664

>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=81.73  E-value=0.29  Score=41.41  Aligned_cols=22  Identities=14%  Similarity=0.282  Sum_probs=20.1

Q ss_pred             eeeEecCCCCChhHHHHHHHHH
Q psy5595          63 KIPIFSAAGLPHNEIAAQICRQ   84 (293)
Q Consensus        63 r~~I~g~~G~GKT~L~~~I~~~   84 (293)
                      +++|+|.+|+|||+|+-.|..+
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            7999999999999999988764

>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=81.15  E-value=0.21  Score=43.88  Aligned_cols=59  Identities=19%  Similarity=0.158  Sum_probs=42.7

Q ss_pred             EEEecCCCccccccc--------cccCCCCCCCCcccccccchhhhccccccCCccccccceeecCCCC
Q psy5595         229 ILTMPNDDFKVSAAR--------EEVPGRRGFPGYMYTNLATIYERAGRVEGRNGSITQIPILTMPNDV  289 (293)
Q Consensus       229 ~v~~~~~d~~dpi~~--------~~la~~r~~Pai~~~~~~s~~~r~g~~~~~~Gs~~~~~~~~~~~~~  289 (293)
                      =|++--||++-..-.        ++.+ .++||+...+.+..+|+|++++.. .||+|.+.++-.+.||
T Consensus       131 dVLli~Dsltr~A~A~rEis~~~ge~p-~~gyp~~~~~~~~~l~era~~~~~-gGsit~~~~~~~~~~d  197 (289)
T d1xpua3         131 DVIILLDSITRLARAYNTVVPASGKVL-TGGVDANALHRPKRFFGAARNVEE-GGSLTIIATALIDTGS  197 (289)
T ss_dssp             EEEEEESCHHHHHHHHHHHSCC---CB-SSSSBTTTTHHHHHHHHTCEECTT-SCEEEEEEEEECSSSC
T ss_pred             CceeecCcHHHHHHHHHHHHhhccCCC-cCCcChhhhhhhHHHHHhccCCCC-CCcceEEEEEeecCCC
Confidence            366667787755332        3667 579999999999999999998875 6788877766665554

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=80.44  E-value=0.45  Score=40.47  Aligned_cols=24  Identities=8%  Similarity=0.124  Sum_probs=21.3

Q ss_pred             ceeeEecCCCCChhHHHHHHHHHh
Q psy5595          62 QKIPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        62 Qr~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      =++||+|-|.+|||||...+.++-
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCC
Confidence            479999999999999999988654

>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=80.24  E-value=0.5  Score=37.37  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=19.3

Q ss_pred             eeEecCCCCChhHHHHHHHHHh
Q psy5595          64 IPIFSAAGLPHNEIAAQICRQA   85 (293)
Q Consensus        64 ~~I~g~~G~GKT~L~~~I~~~~   85 (293)
                      |.|.|.-|+||||++..+...-
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5788999999999999998764