Psyllid ID: psy7187

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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----
Protein Sequence
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Secondary Structure (PSIPRED)
cccccEEEEcccEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHEEEEEccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccEEEEccccEEEEccHccccHHHHHHHHHHHHHHHHHHHHHcHHEEEcHHHHHHHHccccccccccccccHcccccccHHHcccEEEEEEccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHc
Coil and Loop (DISEMBL)
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSvfgrwddtkgeqnidfmpTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGqeidvasdgelplpvLKKYINycrmrcgprltheageKLKNRYVLMRngskedgekklnipiTVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Flexible Loop (DISEMBL)
meggamvladggvVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSvfgrwddtkgeqnidfmpTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQeidvasdgelpLPVLKKYINYCRMrcgprltheageklknrYVLMrngskedgekklnipitvRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Low Complexity Region (SEG)
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Disordered region (IsUnstruct)
*****MVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLM**********KLNIPITVRQLEAIVRIAESMAKMQLEPFAID**********
Disordered Region (DISOPRED)
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVH****************LPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV*****************ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Disordered Region (DISEMBL)
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Disordered Region (DISPRO)
**GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQE****SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE****KLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF
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	214	2.2.26 [Sep-21-2011]
P55862	735	DNA replication licensing	N/A	N/A	0.995	0.289	0.764	3e-95
Q9VGW6	733	DNA replication licensing	yes	N/A	1.0	0.291	0.752	4e-95
Q561P5	735	DNA replication licensing	yes	N/A	0.995	0.289	0.755	2e-94
Q6PCI7	735	DNA replication licensing	N/A	N/A	0.995	0.289	0.746	2e-93
P33992	734	DNA replication licensing	yes	N/A	0.995	0.290	0.737	3e-92
P49718	733	DNA replication licensing	yes	N/A	0.995	0.290	0.741	4e-92
Q0V8B7	734	DNA replication licensing	yes	N/A	0.995	0.290	0.737	9e-92
Q21902	759	DNA replication licensing	yes	N/A	1.0	0.281	0.659	6e-84
P41389	720	DNA replication licensing	yes	N/A	1.0	0.297	0.623	6e-77
P29496	775	Minichromosome maintenanc	yes	N/A	1.0	0.276	0.592	2e-72

>sp|P55862|MCM5A_XENLA DNA replication licensing factor mcm5-A OS=Xenopus laevis GN=mcm5-a PE=1 SV=2

 Score =  347 bits (890), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 166/217 (76%), Positives = 193/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct: 490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQ-S 548

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+ L  LKKYI YCR +CGPRL+ EA EKLKNRY+LMR+G++E   + EK+ +IP
Sbjct: 549 SSVEGEVDLNTLKKYIAYCRAKCGPRLSAEAAEKLKNRYILMRSGAREHERETEKRSSIP 608

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAIVRI+ES+ KM+L+PFA ++ V EALRLF
Sbjct: 609 ITVRQLEAIVRISESLGKMKLQPFATETDVEEALRLF 645

Acts as component of the mcm2-7 complex (mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.
Xenopus laevis (taxid: 8355)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q9VGW6|MCM5_DROME DNA replication licensing factor Mcm5 OS=Drosophila melanogaster GN=Mcm5 PE=1 SV=1

 Score =  347 bits (889), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 164/218 (75%), Positives = 192/218 (88%), Gaps = 4/218 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 426 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWDDTKGE+NIDFMPTILSRFDMIFI+KD HDE+RDITLAKHI+ VH+++ +   
Sbjct: 486 NSIFGRWDDTKGEENIDFMPTILSRFDMIFIVKDIHDESRDITLAKHIINVHLSSNKSAP 545

Query: 121 V-ASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED---GEKKLNI 176
              ++GE+ L   KKYI+YCR  CGPRL+  AGEKLK+RYVLMR+G+ +     +K+L+I
Sbjct: 546 SEPAEGEISLSTFKKYIHYCRTHCGPRLSEAAGEKLKSRYVLMRSGAGQQEKASDKRLSI 605

Query: 177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           PITVRQLEA++RI+ES+AK++L+PFA D HV EALRLF
Sbjct: 606 PITVRQLEAVIRISESLAKIRLQPFATDEHVNEALRLF 643

Acts as component of the Mcm2-7 complex (Mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the Mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q561P5|MCM5_XENTR DNA replication licensing factor mcm5 OS=Xenopus tropicalis GN=mcm5 PE=2 SV=1

 Score =  345 bits (884), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 164/217 (75%), Positives = 193/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct: 490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQ-S 548

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+ L  LKKYI YCR +CGPRL+ E+ EKLKNRY+LMR+G+++   + EK+ +IP
Sbjct: 549 SSVEGEIDLNTLKKYIAYCRAKCGPRLSAESAEKLKNRYILMRSGARDHERETEKRSSIP 608

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAIVRI+ES+ KM+L+PFA ++ V EALRLF
Sbjct: 609 ITVRQLEAIVRISESLGKMKLQPFATETDVEEALRLF 645

Acts as component of the mcm2-7 complex (mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q6PCI7|MCM5B_XENLA DNA replication licensing factor mcm5-B OS=Xenopus laevis GN=mcm5-b PE=2 SV=1

 Score =  341 bits (874), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 162/217 (74%), Positives = 192/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct: 490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQ-S 548

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+ L  LKK+I YCR +CGPRL+ EA EKLKNRY+LMR+G+++   + EK+ +IP
Sbjct: 549 SSVEGEVDLNTLKKFIAYCRAKCGPRLSAEAAEKLKNRYILMRSGARDHERETEKRSSIP 608

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA+VRI+ES+ KM+L+PF  ++ V EALRLF
Sbjct: 609 ITVRQLEAVVRISESLGKMKLQPFVTETDVEEALRLF 645

Acts as component of the mcm2-7 complex (mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P33992|MCM5_HUMAN DNA replication licensing factor MCM5 OS=Homo sapiens GN=MCM5 PE=1 SV=5

 Score =  337 bits (864), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 160/217 (73%), Positives = 193/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 429 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 488

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH++ +H++A  +  
Sbjct: 489 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLHVSALTQTQ 548

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            A +GE+ L  LKK+I YCR++CGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct: 549 -AVEGEIDLAKLKKFIAYCRVKCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 607

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct: 608 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 644

Acts as component of the MCM2-7 complex (MCM complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the MCM2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity (By similarity). Interacts with MCMBP.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P49718|MCM5_MOUSE DNA replication licensing factor MCM5 OS=Mus musculus GN=Mcm5 PE=2 SV=1

 Score =  337 bits (864), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 161/217 (74%), Positives = 192/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 428 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 487

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH+M +H++A  +  
Sbjct: 488 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDMMLAKHVMTLHVSALTQTQ 547

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            A +GE+ L  +KK+I YCR RCGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct: 548 -AVEGEIDLAKMKKFIAYCRARCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 606

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct: 607 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 643

Acts as component of the MCM2-7 complex (MCM complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the MCM2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q0V8B7|MCM5_BOVIN DNA replication licensing factor MCM5 OS=Bos taurus GN=MCM5 PE=2 SV=1

 Score =  336 bits (861), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 160/217 (73%), Positives = 192/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 429 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 488

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH++ +H++A  +  
Sbjct: 489 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLHVSALTQAQ 548

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            A +GE+ L  LKK+I YCR +CGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct: 549 -AVEGEIDLAKLKKFIAYCRAKCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 607

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct: 608 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 644

Acts as component of the MCM2-7 complex (MCM complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the MCM2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q21902|MCM5_CAEEL DNA replication licensing factor mcm-5 OS=Caenorhabditis elegans GN=mcm-5 PE=3 SV=1

 Score =  310 bits (793), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 159/241 (65%), Positives = 186/241 (77%), Gaps = 27/241 (11%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 428 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 487

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHM--TAGQE 118
           NSV+GRWD+++G+ NIDFMPTILSRFDMI+I+KD HD  +D TLAKH+++VH+  +A +E
Sbjct: 488 NSVYGRWDESRGDDNIDFMPTILSRFDMIYIVKDTHDVLKDATLAKHVIEVHVNASAAKE 547

Query: 119 IDVA------------------SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV 160
            D+A                  +DG L +  LKK++ Y R+ CGPRLT +A EKL N YV
Sbjct: 548 RDIAGVPKTATTDSDGVMTMFDTDGFLTIEFLKKFVTYARLNCGPRLTPQASEKLVNHYV 607

Query: 161 LMRNG-----SKEDGEKKLN--IPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL 213
            MRN      + + G+K  N  IPITVRQLEAIVRIAES+AKM+L+ FA D HV EALRL
Sbjct: 608 KMRNPVVNADAFKSGKKAHNSAIPITVRQLEAIVRIAESIAKMELQQFATDKHVEEALRL 667

Query: 214 F 214
           F
Sbjct: 668 F 668

Acts as component of the mcm2-7 complex (mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P41389|MCM5_SCHPO DNA replication licensing factor mcm5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mcm5 PE=1 SV=2

 Score =  286 bits (733), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 136/218 (62%), Positives = 170/218 (77%), Gaps = 4/218 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +EGGAMVLADGG+VCIDEFDKMR++DRVAIHEAMEQQTISIAKAGITT LNSR SVLAAA
Sbjct: 420 LEGGAMVLADGGIVCIDEFDKMRDEDRVAIHEAMEQQTISIAKAGITTILNSRTSVLAAA 479

Query: 61  NSVFGRWDDTKGE-QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N +FGR+DD K   +NIDF  TILSRFDMIFI+KDEHDET+D  +A+H++ +H    +  
Sbjct: 480 NPIFGRYDDMKTPGENIDFQSTILSRFDMIFIVKDEHDETKDRNIARHVINLHTNLQESS 539

Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMR---NGSKEDGEKKLNI 176
           +  + GE+P    ++YINYCR +C P L  EA EKL +++V +R   + S++D   +  I
Sbjct: 540 ETLAIGEIPFDKFRRYINYCRHKCAPNLDAEAAEKLSSQFVAIRKLVHQSEQDSNSRSTI 599

Query: 177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           PITVRQLEAI+RI ES+AKM L P A ++H TEA+RLF
Sbjct: 600 PITVRQLEAIIRITESLAKMSLSPIASEAHATEAIRLF 637

Acts as component of the mcm2-7 complex (mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity (By similarity). Role in DNA replication and essential for viability.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P29496|MCM5_YEAST Minichromosome maintenance protein 5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MCM5 PE=1 SV=1

 Score =  271 bits (693), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 131/221 (59%), Positives = 170/221 (76%), Gaps = 7/221 (3%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +EGGAMVLADGGVVCIDEFDKMR++DRVAIHEAMEQQTISIAKAGITT LNSR SVLAAA
Sbjct: 464 LEGGAMVLADGGVVCIDEFDKMRDEDRVAIHEAMEQQTISIAKAGITTVLNSRTSVLAAA 523

Query: 61  NSVFGRWDDTKGE-QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHM---TAG 116
           N ++GR+DD K    NIDF  TILSRFDMIFI+KD+H+E RDI++A H++ +H     A 
Sbjct: 524 NPIYGRYDDLKSPGDNIDFQTTILSRFDMIFIVKDDHNEERDISIANHVINIHTGNANAM 583

Query: 117 QEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNG---SKEDGEKK 173
           Q     +  E+ +  +K+YI YCR++C PRL+ +A EKL + +V +R     ++ +  ++
Sbjct: 584 QNQQEENGSEISIEKMKRYITYCRLKCAPRLSPQAAEKLSSNFVTIRKQLLINELESTER 643

Query: 174 LNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
            +IPIT+RQLEAI+RI ES+AK++L P A + HV EA+RLF
Sbjct: 644 SSIPITIRQLEAIIRITESLAKLELSPIAQERHVDEAIRLF 684

Acts as component of the MCM2-7 complex (MCM complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the MCM2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity; specifically the MCM2-MCM5 association is proposed to be reversible and to mediate a open ring conformation which may facilitate DNA loading. Once loaded onto DNA, double hexamers can slide on dsDNA in the absence of ATPase activity.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	214
322802332	693	hypothetical protein SINV_14260 [Solenop	1.0	0.308	0.769	4e-98
157132107	734	DNA replication licensing factor MCM5 [A	1.0	0.291	0.778	2e-97
307199084	732	DNA replication licensing factor MCM5 [H	1.0	0.292	0.769	2e-97
340714592	731	PREDICTED: LOW QUALITY PROTEIN: DNA repl	1.0	0.292	0.764	2e-96
350410892	731	PREDICTED: DNA replication licensing fac	1.0	0.292	0.764	2e-96
307183989	732	DNA replication licensing factor MCM5 [C	1.0	0.292	0.760	2e-96
156404992	730	predicted protein [Nematostella vectensi	0.995	0.291	0.778	9e-96
328722483	729	PREDICTED: DNA replication licensing fac	0.995	0.292	0.804	2e-95
66535555	732	PREDICTED: DNA replication licensing fac	1.0	0.292	0.764	2e-95
383863981	732	PREDICTED: DNA replication licensing fac	1.0	0.292	0.764	3e-95

>gi|322802332|gb|EFZ22728.1| hypothetical protein SINV_14260 [Solenopsis invicta]

 Score =  362 bits (930), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 167/217 (76%), Positives = 196/217 (90%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 388 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 447

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWDD KGE+NIDFMPTILSRFDMIFI+KDEH+  RD+TLAKH+M +H  AGQ  +
Sbjct: 448 NSVFGRWDDIKGEENIDFMPTILSRFDMIFIVKDEHEHNRDVTLAKHVMNIHCNAGQITE 507

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+P+ +L+KYINYCR RCGPRL+ EAGEKLKNRYV+MR G++E   D EK+L+IP
Sbjct: 508 QSVEGEIPVHILRKYINYCRTRCGPRLSVEAGEKLKNRYVMMRAGTREHEKDSEKRLSIP 567

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA++RI+E++AKMQL+PFA + H+ EALRLF
Sbjct: 568 ITVRQLEAVIRISEALAKMQLQPFATELHINEALRLF 604

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157132107|ref|XP_001662466.1| DNA replication licensing factor MCM5 [Aedes aegypti] gi|108881751|gb|EAT45976.1| AAEL002810-PA [Aedes aegypti]

 Score =  360 bits (925), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 169/217 (77%), Positives = 192/217 (88%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct: 428 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 487

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWDDTKGE+NIDFMPTILSRFDMIFI+KD HD+ RDITLAKH+M VHM A +   
Sbjct: 488 NSIFGRWDDTKGEENIDFMPTILSRFDMIFIVKDVHDQARDITLAKHVMNVHMNANKTTL 547

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED---GEKKLNIP 177
              +GE+PL + KKYINYCR  CGPRL  EA EKLK+RYVLMR+G+ E     +K+L+IP
Sbjct: 548 ETQEGEVPLALFKKYINYCRTHCGPRLNEEAAEKLKSRYVLMRSGAGEHERMADKRLSIP 607

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA++RI+ES+AKMQL+PFA ++HVTEALRLF
Sbjct: 608 ITVRQLEAVIRISESLAKMQLQPFATEAHVTEALRLF 644

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307199084|gb|EFN79794.1| DNA replication licensing factor MCM5 [Harpegnathos saltator]

 Score =  360 bits (925), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 167/217 (76%), Positives = 195/217 (89%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 426 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWDD KGE+NIDFMPTILSRFDMIFI+KDEH+  RD+TLAKH+M +H  AGQ  +
Sbjct: 486 NSVFGRWDDIKGEENIDFMPTILSRFDMIFIVKDEHEHNRDVTLAKHVMNIHCNAGQITE 545

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+P+ +LKKYINYCR RCGPRL+ EAGEKLKNRYV+MR G++E   D EK+L+IP
Sbjct: 546 QSVEGEIPVHILKKYINYCRTRCGPRLSVEAGEKLKNRYVMMRTGTREHEKDSEKRLSIP 605

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAI+R++E++AKM ++PFA + HV EALRLF
Sbjct: 606 ITVRQLEAIIRMSEALAKMHMQPFATEVHVNEALRLF 642

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714592|ref|XP_003395810.1| PREDICTED: LOW QUALITY PROTEIN: DNA replication licensing factor Mcm5-like [Bombus terrestris]

 Score =  357 bits (916), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 166/217 (76%), Positives = 195/217 (89%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 425 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 484

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWD+ KGE+NIDFMPTILSRFDMIFI+KDEH++ +D+TLAKH+M +H  AGQ  +
Sbjct: 485 NSIFGRWDEIKGEENIDFMPTILSRFDMIFIVKDEHEQNKDVTLAKHVMNIHTNAGQVTE 544

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
             ++GELPL +LKKYI+YCR RCGPRL+ EAGEKLK+RYV+MR  ++E   D EK+L+IP
Sbjct: 545 QLAEGELPLHILKKYIHYCRTRCGPRLSKEAGEKLKHRYVVMRASTREHEKDMEKRLSIP 604

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA++RI+ES+AKMQL+PFA   HV EALRLF
Sbjct: 605 ITVRQLEAVIRISESLAKMQLQPFATQIHVNEALRLF 641

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350410892|ref|XP_003489169.1| PREDICTED: DNA replication licensing factor Mcm5-like [Bombus impatiens]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 166/217 (76%), Positives = 195/217 (89%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 425 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 484

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWD+ KGE+NIDFMPTILSRFDMIFI+KDEH++ +D+TLAKH+M +H  AGQ  +
Sbjct: 485 NSIFGRWDEIKGEENIDFMPTILSRFDMIFIVKDEHEQNKDVTLAKHVMNIHTNAGQVTE 544

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
             ++GELPL +LKKYI+YCR RCGPRL+ EAGEKLK+RYV+MR  ++E   D EK+L+IP
Sbjct: 545 QLAEGELPLHILKKYIHYCRTRCGPRLSKEAGEKLKHRYVVMRASTREHEKDMEKRLSIP 604

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA++RI+ES+AKMQL+PFA   HV EALRLF
Sbjct: 605 ITVRQLEAVIRISESLAKMQLQPFATQIHVNEALRLF 641

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307183989|gb|EFN70560.1| DNA replication licensing factor MCM5 [Camponotus floridanus]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 165/217 (76%), Positives = 195/217 (89%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 426 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWDD KGE+NIDFMPTILSRFD IFI+KDEH++ +DITLAKH+M +H  AGQ  +
Sbjct: 486 NSVFGRWDDIKGEENIDFMPTILSRFDTIFIVKDEHEQNKDITLAKHVMNIHCNAGQITE 545

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            + +GE+P+ +LKKYINYCRMRCGPRL+ EA EKLKNRYV+MR  ++E   + EK+L+IP
Sbjct: 546 QSVEGEIPVHILKKYINYCRMRCGPRLSAEAAEKLKNRYVMMRADTREHEKNSEKRLSIP 605

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAI+RI+E++AKMQ++PFA + H+ EALRLF
Sbjct: 606 ITVRQLEAIIRISEALAKMQMQPFATELHINEALRLF 642

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156404992|ref|XP_001640516.1| predicted protein [Nematostella vectensis] gi|156227651|gb|EDO48453.1| predicted protein [Nematostella vectensis]

 Score =  355 bits (910), Expect = 9e-96,   Method: Compositional matrix adjust.
 Identities = 169/217 (77%), Positives = 193/217 (88%), Gaps = 4/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRC+VLAAA
Sbjct: 425 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCAVLAAA 484

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWDDTKG+QNIDFMPTILSRFD IFI+KDEH++ +DI LAKH+M+VH+ A Q   
Sbjct: 485 NSVFGRWDDTKGDQNIDFMPTILSRFDTIFIVKDEHNQAKDIHLAKHVMQVHLNAAQTTQ 544

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            A++GEL L  LKKYI+YC+ +CGPRL+  A EKLKNRYVLMR+G+KE   D EKK++IP
Sbjct: 545 -ANEGELSLSFLKKYISYCKSKCGPRLSESAAEKLKNRYVLMRSGAKEHERDTEKKISIP 603

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAI+RI+ES+AKM L PFA ++HV EALRLF
Sbjct: 604 ITVRQLEAIIRISESLAKMSLSPFATETHVDEALRLF 640

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|328722483|ref|XP_001950445.2| PREDICTED: DNA replication licensing factor mcm5-like [Acyrthosiphon pisum]

 Score =  353 bits (907), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 173/215 (80%), Positives = 188/215 (87%), Gaps = 2/215 (0%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +EGGAMVLAD GVVCIDEFDKMRE DRVAIHEAMEQQTISIAKAGITTTLNSRCSV+AAA
Sbjct: 426 VEGGAMVLADSGVVCIDEFDKMREGDRVAIHEAMEQQTISIAKAGITTTLNSRCSVMAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NSVFGRWDD+KGE NIDFMPTILSRFDMIFIIKDEHD+ RD+TLAKHIM VH+  GQ   
Sbjct: 486 NSVFGRWDDSKGEDNIDFMPTILSRFDMIFIIKDEHDQNRDMTLAKHIMNVHLMNGQA-K 544

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE-DGEKKLNIPIT 179
              +GELPL  +KK INY R RCGPRL+ EAGEKLK+RYV+MR G  E + EKKL IPIT
Sbjct: 545 QEVEGELPLATIKKLINYIRRRCGPRLSEEAGEKLKSRYVIMRTGCHELESEKKLAIPIT 604

Query: 180 VRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           VRQLEAI+RIAES+AKMQL+PFA DSHV EALRLF
Sbjct: 605 VRQLEAIIRIAESLAKMQLQPFATDSHVDEALRLF 639

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66535555|ref|XP_624292.1| PREDICTED: DNA replication licensing factor mcm5 [Apis mellifera]

 Score =  353 bits (907), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 166/217 (76%), Positives = 194/217 (89%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLADGGVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 426 MEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWDD KGE+NIDFMPTILSRFDMIFI+KDEH+  +D+TLAKH+M +H  A Q  +
Sbjct: 486 NSIFGRWDDIKGEENIDFMPTILSRFDMIFIVKDEHELNKDVTLAKHVMNIHCNATQVTE 545

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            +++GELPL +LKKYI+YCR +CGPRL+ EAGEKLKNRYV+MR  ++E   D EK+L+IP
Sbjct: 546 QSAEGELPLHILKKYIHYCRTQCGPRLSKEAGEKLKNRYVVMRASTREHEKDTEKRLSIP 605

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEAI+RI+ES+AKMQL+ FA + HV EALRLF
Sbjct: 606 ITVRQLEAIIRISESLAKMQLQSFATEIHVNEALRLF 642

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383863981|ref|XP_003707458.1| PREDICTED: DNA replication licensing factor Mcm5-like [Megachile rotundata]

 Score =  353 bits (906), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 166/217 (76%), Positives = 193/217 (88%), Gaps = 3/217 (1%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           MEGGAMVLAD GVVCIDEFDKM+EDDRVAIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 426 MEGGAMVLADDGVVCIDEFDKMKEDDRVAIHEAMEQQTISIAKAGITTTLNTRCSVLAAA 485

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           NS+FGRWDD KGE+NIDFMPTILSRFDMIFI+KDEH+ T+DI LAKH+M +H  A Q  D
Sbjct: 486 NSIFGRWDDIKGEENIDFMPTILSRFDMIFIVKDEHEHTKDIMLAKHVMNIHTNATQVTD 545

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
            +++GELPL VLKKYI+YCR RCGPRL+ EAGEKLKNRYV+MR  ++E   D EK+L+IP
Sbjct: 546 QSAEGELPLHVLKKYIHYCRTRCGPRLSKEAGEKLKNRYVVMRASTREHEKDTEKRLSIP 605

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           ITVRQLEA++RI+E++AKM+L+ FA + HV EALRLF
Sbjct: 606 ITVRQLEAVIRISEALAKMKLQSFATEVHVNEALRLF 642

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	214
FB|FBgn0017577	733	Mcm5 "Minichromosome maintenan	1.0	0.291	0.752	1.8e-85
UNIPROTKB|P55862	735	mcm5-a "DNA replication licens	0.995	0.289	0.764	4.9e-85
UNIPROTKB|Q561P5	735	mcm5 "DNA replication licensin	0.995	0.289	0.755	1.7e-84
ZFIN|ZDB-GENE-021209-1	736	mcm5 "MCM5 minichromosome main	0.995	0.289	0.760	3.4e-84
UNIPROTKB|Q6PCI7	735	mcm5-b "DNA replication licens	0.995	0.289	0.746	9.1e-84
UNIPROTKB|F1P8U8	661	MCM5 "Uncharacterized protein"	0.995	0.322	0.741	3.9e-83
MGI|MGI:103197	733	Mcm5 "minichromosome maintenan	0.995	0.290	0.741	5e-83
UNIPROTKB|B1AHB1	691	MCM5 "MCM5 minichromosome main	0.995	0.308	0.737	6.4e-83
UNIPROTKB|P33992	734	MCM5 "DNA replication licensin	0.995	0.290	0.737	6.4e-83
UNIPROTKB|Q5ZKL0	734	MCM5 "Uncharacterized protein"	0.995	0.290	0.746	1e-82

FB|FBgn0017577 Mcm5 "Minichromosome maintenance 5" [Drosophila melanogaster (taxid:7227)]

 Score = 855 (306.0 bits), Expect = 1.8e-85, P = 1.8e-85
 Identities = 164/218 (75%), Positives = 192/218 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   426 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 485

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI- 119
             NS+FGRWDDTKGE+NIDFMPTILSRFDMIFI+KD HDE+RDITLAKHI+ VH+++ +   
Sbjct:   486 NSIFGRWDDTKGEENIDFMPTILSRFDMIFIVKDIHDESRDITLAKHIINVHLSSNKSAP 545

Query:   120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED---GEKKLNI 176
                ++GE+ L   KKYI+YCR  CGPRL+  AGEKLK+RYVLMR+G+ +     +K+L+I
Sbjct:   546 SEPAEGEISLSTFKKYIHYCRTHCGPRLSEAAGEKLKSRYVLMRSGAGQQEKASDKRLSI 605

Query:   177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             PITVRQLEA++RI+ES+AK++L+PFA D HV EALRLF
Sbjct:   606 PITVRQLEAVIRISESLAKIRLQPFATDEHVNEALRLF 643

GO:0005656 "pre-replicative complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

GO:0006267 "pre-replicative complex assembly" evidence=ISS

GO:0030261 "chromosome condensation" evidence=IMP

GO:0042555 "MCM complex" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0043138 "3'-5' DNA helicase activity" evidence=IDA

GO:0000712 "resolution of meiotic recombination intermediates" evidence=IMP

GO:0042023 "DNA endoreduplication" evidence=IMP

GO:0007126 "meiosis" evidence=IMP

UNIPROTKB|P55862 mcm5-a "DNA replication licensing factor mcm5-A" [Xenopus laevis (taxid:8355)]

 Score = 851 (304.6 bits), Expect = 4.9e-85, P = 4.9e-85
 Identities = 166/217 (76%), Positives = 193/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct:   490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQSS 549

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              + +GE+ L  LKKYI YCR +CGPRL+ EA EKLKNRY+LMR+G++E   + EK+ +IP
Sbjct:   550 -SVEGEVDLNTLKKYIAYCRAKCGPRLSAEAAEKLKNRYILMRSGAREHERETEKRSSIP 608

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRI+ES+ KM+L+PFA ++ V EALRLF
Sbjct:   609 ITVRQLEAIVRISESLGKMKLQPFATETDVEEALRLF 645

GO:0000785 "chromatin" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006200 "ATP catabolic process" evidence=IDA

GO:0006268 "DNA unwinding involved in replication" evidence=IDA

GO:0030174 "regulation of DNA-dependent DNA replication initiation" evidence=IDA

GO:0042555 "MCM complex" evidence=IDA;IPI

GO:0003682 "chromatin binding" evidence=IDA

GO:0016887 "ATPase activity" evidence=IDA

UNIPROTKB|Q561P5 mcm5 "DNA replication licensing factor mcm5" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 846 (302.9 bits), Expect = 1.7e-84, P = 1.7e-84
 Identities = 164/217 (75%), Positives = 193/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct:   490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQSS 549

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              + +GE+ L  LKKYI YCR +CGPRL+ E+ EKLKNRY+LMR+G+++   + EK+ +IP
Sbjct:   550 -SVEGEIDLNTLKKYIAYCRAKCGPRLSAESAEKLKNRYILMRSGARDHERETEKRSSIP 608

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRI+ES+ KM+L+PFA ++ V EALRLF
Sbjct:   609 ITVRQLEAIVRISESLGKMKLQPFATETDVEEALRLF 645

GO:0000785 "chromatin" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0006268 "DNA unwinding involved in replication" evidence=ISS

GO:0030174 "regulation of DNA-dependent DNA replication initiation" evidence=ISS

GO:0042555 "MCM complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

ZFIN|ZDB-GENE-021209-1 mcm5 "MCM5 minichromosome maintenance deficient 5 (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 165/217 (76%), Positives = 191/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   431 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 490

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWDDTKGE NIDFMPTILSRFDMIFIIKD HD+ RD+TLA+H+M VH++A  + +
Sbjct:   491 NSVFGRWDDTKGEDNIDFMPTILSRFDMIFIIKDHHDQQRDMTLARHVMNVHLSAQTQTE 550

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
                +GE+PL  LKKYI Y R++CGPRL+  A EKLKNRYVLMR+G+KE   + +++++IP
Sbjct:   551 -GVEGEIPLATLKKYIAYSRVKCGPRLSAAAAEKLKNRYVLMRSGAKEHERETDRRVSIP 609

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEA+VRIAES+AKM+L+P A +  V EALRLF
Sbjct:   610 ITVRQLEAVVRIAESLAKMKLQPIAGEEEVDEALRLF 646

GO:0003677 "DNA binding" evidence=IEA

GO:0003678 "DNA helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0042555 "MCM complex" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0000278 "mitotic cell cycle" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q6PCI7 mcm5-b "DNA replication licensing factor mcm5-B" [Xenopus laevis (taxid:8355)]

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 162/217 (74%), Positives = 192/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   430 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 489

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSV+GRWDDTKGE+NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M VH++A  +  
Sbjct:   490 NSVYGRWDDTKGEENIDFMPTILSRFDMIFIVKDEHNEQRDMTLAKHVMNVHLSARTQSS 549

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              + +GE+ L  LKK+I YCR +CGPRL+ EA EKLKNRY+LMR+G+++   + EK+ +IP
Sbjct:   550 -SVEGEVDLNTLKKFIAYCRAKCGPRLSAEAAEKLKNRYILMRSGARDHERETEKRSSIP 608

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEA+VRI+ES+ KM+L+PF  ++ V EALRLF
Sbjct:   609 ITVRQLEAVVRISESLGKMKLQPFVTETDVEEALRLF 645

GO:0000785 "chromatin" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0006268 "DNA unwinding involved in replication" evidence=ISS

GO:0030174 "regulation of DNA-dependent DNA replication initiation" evidence=ISS

GO:0042555 "MCM complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

UNIPROTKB|F1P8U8 MCM5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 833 (298.3 bits), Expect = 3.9e-83, P = 3.9e-83
 Identities = 161/217 (74%), Positives = 192/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   356 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 415

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH++ +H++A  +  
Sbjct:   416 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLHVSALTQTQ 475

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              A +GE+ L  LKK+I YCR +CGPRL+ EA EKLKNRY++MR+G+++   D +++ NIP
Sbjct:   476 -AVEGEVDLTKLKKFIAYCRAKCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSNIP 534

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct:   535 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 571

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0042555 "MCM complex" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003678 "DNA helicase activity" evidence=IEA

MGI|MGI:103197 Mcm5 "minichromosome maintenance deficient 5, cell division cycle 46 (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 832 (297.9 bits), Expect = 5.0e-83, P = 5.0e-83
 Identities = 161/217 (74%), Positives = 192/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   428 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 487

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH+M +H++A  +  
Sbjct:   488 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDMMLAKHVMTLHVSALTQTQ 547

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              A +GE+ L  +KK+I YCR RCGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct:   548 -AVEGEIDLAKMKKFIAYCRARCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 606

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct:   607 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 643

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003678 "DNA helicase activity" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0042555 "MCM complex" evidence=ISO

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|B1AHB1 MCM5 "MCM5 minichromosome maintenance deficient 5, cell division cycle 46 (S. cerevisiae), isoform CRA_c" [Homo sapiens (taxid:9606)]

 Score = 831 (297.6 bits), Expect = 6.4e-83, P = 6.4e-83
 Identities = 160/217 (73%), Positives = 193/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   386 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 445

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH++ +H++A  +  
Sbjct:   446 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLHVSALTQTQ 505

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              A +GE+ L  LKK+I YCR++CGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct:   506 -AVEGEIDLAKLKKFIAYCRVKCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 564

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct:   565 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 601

GO:0003678 "DNA helicase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0042555 "MCM complex" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|P33992 MCM5 "DNA replication licensing factor MCM5" [Homo sapiens (taxid:9606)]

 Score = 831 (297.6 bits), Expect = 6.4e-83, P = 6.4e-83
 Identities = 160/217 (73%), Positives = 193/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   429 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 488

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+ LAKH++ +H++A  +  
Sbjct:   489 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLHVSALTQTQ 548

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              A +GE+ L  LKK+I YCR++CGPRL+ EA EKLKNRY++MR+G+++   D +++ +IP
Sbjct:   549 -AVEGEIDLAKLKKFIAYCRVKCGPRLSAEAAEKLKNRYIIMRSGARQHERDSDRRSSIP 607

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRIAE+++KM+L+PFA ++ V EALRLF
Sbjct:   608 ITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLF 644

GO:0003678 "DNA helicase activity" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0042555 "MCM complex" evidence=IDA

GO:0005634 "nucleus" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006260 "DNA replication" evidence=TAS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q5ZKL0 MCM5 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 829 (296.9 bits), Expect = 1.0e-82, P = 1.0e-82
 Identities = 162/217 (74%), Positives = 192/217 (88%)

Query:     1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
             MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA
Sbjct:   429 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 488

Query:    61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             NSVFGRWD+TKGE NIDFMPTILSRFDMIFI+KDEH+E RD+TLAKH+M +H++A  +  
Sbjct:   489 NSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDMTLAKHVMSLHVSALTQTQ 548

Query:   121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE---DGEKKLNIP 177
              A +GE+ L  LKK I++CR +CGPRL+  A EKLKNRY+LMR+GS++   + +++ +IP
Sbjct:   549 -AVEGEIELNKLKKLISFCRTKCGPRLSVAAAEKLKNRYILMRSGSRQHEQESDRRSSIP 607

Query:   178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
             ITVRQLEAIVRIAES++KM+L+PFA ++ V EALRLF
Sbjct:   608 ITVRQLEAIVRIAESLSKMKLQPFATEADVEEALRLF 644

GO:0003678 "DNA helicase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006270 "DNA replication initiation" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0042555 "MCM complex" 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)
P33992	MCM5_HUMAN	3, ., 6, ., 4, ., 1, 2	0.7373	0.9953	0.2901	yes	N/A
P29496	MCM5_YEAST	3, ., 6, ., 4, ., 1, 2	0.5927	1.0	0.2761	yes	N/A
P41389	MCM5_SCHPO	3, ., 6, ., 4, ., 1, 2	0.6238	1.0	0.2972	yes	N/A
P49718	MCM5_MOUSE	3, ., 6, ., 4, ., 1, 2	0.7419	0.9953	0.2905	yes	N/A
Q0V8B7	MCM5_BOVIN	3, ., 6, ., 4, ., 1, 2	0.7373	0.9953	0.2901	yes	N/A
Q21902	MCM5_CAEEL	3, ., 6, ., 4, ., 1, 2	0.6597	1.0	0.2819	yes	N/A
Q561P5	MCM5_XENTR	3, ., 6, ., 4, ., 1, 2	0.7557	0.9953	0.2897	yes	N/A
Q9VGW6	MCM5_DROME	3, ., 6, ., 4, ., 1, 2	0.7522	1.0	0.2919	yes	N/A
Q54CP4	MCM5_DICDI	3, ., 6, ., 4, ., 1, 2	0.5157	0.9953	0.2813	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	214
smart00350	509	smart00350, MCM, minichromosome maintenance protei	1e-115
pfam00493	327	pfam00493, MCM, MCM2/3/5 family	1e-109
COG1241	682	COG1241, MCM2, Predicted ATPase involved in replic	5e-88
PTZ00111	915	PTZ00111, PTZ00111, DNA replication licensing fact	1e-44

>gnl|CDD|214631 smart00350, MCM, minichromosome maintenance proteins

 Score =  337 bits (867), Expect = e-115
 Identities = 117/215 (54%), Positives = 150/215 (69%), Gaps = 2/215 (0%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +E GA+VLAD GV CIDEFDKM + DR AIHEAMEQQTISIAKAGITTTLN+RCSVLAAA
Sbjct: 291 LEAGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAA 350

Query: 61  NSVFGRWDDTKG-EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N + GR+D     E+NID    ILSRFD++F++ DE DE RD  LAKH++ +H  +  E 
Sbjct: 351 NPIGGRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEE 410

Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPIT 179
           D A +  L    L+KYI Y R +  P+L+ EA +KL   YV +R       E + +IPIT
Sbjct: 411 DEAFEPPLSQEKLRKYIAYAREKIKPKLSEEAADKLVKAYVDLRKED-SQTESRSSIPIT 469

Query: 180 VRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           VRQLE+I+R++E+ AKM+L     ++ V EA+RL 
Sbjct: 470 VRQLESIIRLSEAHAKMRLSDVVEEADVEEAIRLL 504

Length = 509

>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family

 Score =  316 bits (812), Expect = e-109
 Identities = 117/215 (54%), Positives = 157/215 (73%), Gaps = 5/215 (2%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +E GA+VLADGGV CIDEFDKM E+DRVAIHEAMEQQTISIAKAGI  TLN+RCSVLAAA
Sbjct: 112 LEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGIVATLNARCSVLAAA 171

Query: 61  NSVFGRWDDTKG-EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N +FGR+D  K   +NI+  P +LSRFD+IF++ D+ DE RD  LAKHI+ +H  + +E 
Sbjct: 172 NPIFGRYDPKKSVAENINLPPPLLSRFDLIFVLLDKPDEERDEELAKHIVDLHRASDEE- 230

Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPIT 179
           ++ ++ E+   +L+KYI Y R    P+L+ EA EKL N YV +R   KE    + +IPIT
Sbjct: 231 EIETEDEIDPELLRKYIAYARENIKPKLSDEAREKLVNWYVELR---KESEGSRGSIPIT 287

Query: 180 VRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           VRQLE+++R++E+ A+++L     +  V EA+RL 
Sbjct: 288 VRQLESLIRLSEAHARLRLSEEVTEEDVEEAIRLI 322

Length = 327

>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

 Score =  272 bits (698), Expect = 5e-88
 Identities = 121/219 (55%), Positives = 152/219 (69%), Gaps = 7/219 (3%)

Query: 2   EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAAN 61
           E GA+VLADGGV CIDEFDKM E+DRVAIHEAMEQQTISIAKAGIT TLN+RCSVLAAAN
Sbjct: 375 EAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAAN 434

Query: 62  SVFGRWDDTKGE-QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
             FGR+D  K   +NI+    +LSRFD+IF++KD+ DE +D  +A+HI+  H     E  
Sbjct: 435 PKFGRYDPKKTVAENINLPAPLLSRFDLIFVLKDDPDEEKDEEIAEHILDKHRGEEPEET 494

Query: 121 VASDG-----ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLN 175
           ++ DG     E    +L+KYI+Y R    P LT EA E+L++ YV MR  S    EK+  
Sbjct: 495 ISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEAREELEDYYVEMRKKSALVEEKRT- 553

Query: 176 IPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           IPIT RQLE+I+R+AE+ AKM+L     +  V EA+RL 
Sbjct: 554 IPITARQLESIIRLAEAHAKMRLSDVVEEEDVDEAIRLV 592

Length = 682

>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4; Provisional

 Score =  158 bits (400), Expect = 1e-44
 Identities = 79/256 (30%), Positives = 140/256 (54%), Gaps = 43/256 (16%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           ++ GA+VLA+GGV CIDE DK   + R++++E MEQQT++IAKAGI  TL +  ++LA+ 
Sbjct: 548 IQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASC 607

Query: 61  NSVFGRWDDTKGE-QNIDFMPTILSRFDMIFIIKDEHDETRD----ITLAKHIMKVHMT- 114
           N +  R++  K   +NI+  P++ +RFD+I+++ D  D+  D    +++AK  +  HMT 
Sbjct: 608 NPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQDTDQLISLSIAKDFLLPHMTG 667

Query: 115 AGQEID---------VASDGELP--------LPVLKKYINYCRMRCGPRLTHEAGEKLKN 157
           +G + D         V  +            L +L+ YI + ++ C P+L+ EA + +  
Sbjct: 668 SGNDEDTYDRSNTMHVEDESLRSEKDYNKNDLDMLRMYIKFSKLHCFPKLSDEAKKVITR 727

Query: 158 RYVLMRNG------------SKEDGEKKL--------NIPITVRQLEAIVRIAESMAKMQ 197
            YV MR G            ++ED +  L         I ++ R + +I+RI+ S+A+M+
Sbjct: 728 EYVKMRQGNFQTSNLDELEHAQEDDDDDLYYQSSGTRMIYVSSRMISSIIRISVSLARMR 787

Query: 198 LEPFAIDSHVTEALRL 213
           L      +   +A+++
Sbjct: 788 LSTVVTPADALQAVQI 803

Length = 915

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	214
COG1241	682	MCM2 Predicted ATPase involved in replication cont	100.0
KOG0480|consensus	764		100.0
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	100.0
KOG0481|consensus	729		100.0
KOG0479|consensus	818		100.0
KOG0482|consensus	721		100.0
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	100.0
KOG0477|consensus	854		100.0
KOG0478|consensus	804		100.0
smart00350	509	MCM minichromosome maintenance proteins.	100.0
COG0606	490	Predicted ATPase with chaperone activity [Posttran	100.0
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	100.0
PRK09862	506	putative ATP-dependent protease; Provisional	100.0
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	99.96
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.95
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.95
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.95
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.94
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.93
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.93
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.93
PRK13531	498	regulatory ATPase RavA; Provisional	99.76
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.76
COG0714	329	MoxR-like ATPases [General function prediction onl	99.6
PRK13765	637	ATP-dependent protease Lon; Provisional	99.55
PF07726	131	AAA_3: ATPase family associated with various cellu	99.53
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.49
PF13335	96	Mg_chelatase_2: Magnesium chelatase, subunit ChlI	99.37
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.31
COG1067	647	LonB Predicted ATP-dependent protease [Posttransla	99.31
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.31
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.12
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.9
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.79
COG2204	464	AtoC Response regulator containing CheY-like recei	98.7
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.64
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.62
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.62
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.59
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.59
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.58
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.54
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.52
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.52
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.51
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.48
PF13654	509	AAA_32: AAA domain; PDB: 3K1J_B.	98.46
PHA02244	383	ATPase-like protein	98.46
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.44
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.43
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.42
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.42
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.42
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.4
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.38
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.37
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.36
KOG1942|consensus	456		98.33
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.33
PRK15115	444	response regulator GlrR; Provisional	98.32
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.31
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	98.28
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.25
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.09
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.09
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.0
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.93
CHL00181	287	cbbX CbbX; Provisional	97.85
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.84
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.83
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.81
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.79
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.66
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.63
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.62
CHL00095	821	clpC Clp protease ATP binding subunit	97.62
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	97.6
KOG2680|consensus	454		97.55
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.48
KOG2028|consensus	554		97.43
PRK10865	857	protein disaggregation chaperone; Provisional	97.4
PRK13341	725	recombination factor protein RarA/unknown domain f	97.36
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.33
PRK13342	413	recombination factor protein RarA; Reviewed	97.33
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.3
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.23
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.11
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.08
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.08
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.07
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.04
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.03
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.01
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.99
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.98
KOG2545|consensus	543		96.96
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.86
PRK04132	846	replication factor C small subunit; Provisional	96.78
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	96.74
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.73
PLN03025	319	replication factor C subunit; Provisional	96.67
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.63
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.61
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	96.6
CHL00176	638	ftsH cell division protein; Validated	96.58
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.57
PRK12402	337	replication factor C small subunit 2; Reviewed	96.57
CHL00195	489	ycf46 Ycf46; Provisional	96.52
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.51
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.49
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.49
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.47
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.43
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.38
PRK08084	235	DNA replication initiation factor; Provisional	96.36
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.33
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.33
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.33
COG4650	531	RtcR Sigma54-dependent transcription regulator con	96.31
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.31
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.23
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.21
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.17
PF00004	132	AAA: ATPase family associated with various cellula	96.06
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	95.98
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.95
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	95.94
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.9
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	95.89
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.89
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	95.86
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.82
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	95.79
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	95.71
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	95.68
PRK06620	214	hypothetical protein; Validated	95.57
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.47
PHA01747	425	putative ATP-dependent protease	95.45
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.43
PRK08903	227	DnaA regulatory inactivator Hda; Validated	95.3
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.23
PRK15455	644	PrkA family serine protein kinase; Provisional	95.11
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.1
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.07
CHL00095	821	clpC Clp protease ATP binding subunit	95.01
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	94.94
PHA02544	316	44 clamp loader, small subunit; Provisional	94.89
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	94.89
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	94.87
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	94.82
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	94.7
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	94.64
PRK09087	226	hypothetical protein; Validated	94.4
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.38
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	94.29
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	94.25
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	94.25
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	94.16
PF13148	378	DUF3987: Protein of unknown function (DUF3987)	94.12
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	94.07
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	94.0
PRK00149	450	dnaA chromosomal replication initiation protein; R	93.95
CHL00206	2281	ycf2 Ycf2; Provisional	93.84
KOG2004|consensus	906		93.76
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	93.61
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	93.61
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	93.36
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	93.31
PRK08727	233	hypothetical protein; Validated	93.24
PRK07940	394	DNA polymerase III subunit delta'; Validated	93.2
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	93.09
PRK10865	857	protein disaggregation chaperone; Provisional	93.0
PRK14086	617	dnaA chromosomal replication initiation protein; P	92.99
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	92.83
PRK12422	445	chromosomal replication initiation protein; Provis	92.78
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	92.68
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	92.54
KOG1051|consensus	898		92.38
KOG0734|consensus	752		92.2
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	91.83
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	91.8
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	91.8
PLN00035	103	histone H4; Provisional	91.53
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	91.3
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	91.23
cd00076	85	H4 Histone H4, one of the four histones, along wit	90.86
PRK14087	450	dnaA chromosomal replication initiation protein; P	90.82
KOG0730|consensus	693		90.75
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	90.64
KOG0736|consensus	953		90.6
smart00803	65	TAF TATA box binding protein associated factor. TA	90.43
KOG0745|consensus	564		90.26
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	89.87
KOG1808|consensus	1856		89.83
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	89.82
PTZ00015	102	histone H4; Provisional	89.4
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	88.94
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	88.85
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	88.79
KOG0989|consensus	346		88.26
smart00576	77	BTP Bromodomain transcription factors and PHD doma	88.23
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	88.04
PRK14088	440	dnaA chromosomal replication initiation protein; P	87.85
PRK04195	482	replication factor C large subunit; Provisional	87.82
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	87.29
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	86.85
KOG2035|consensus	351		86.05
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	85.83
KOG0738|consensus	491		85.52
PRK05642	234	DNA replication initiation factor; Validated	84.9
smart00382	148	AAA ATPases associated with a variety of cellular	83.82
smart00417	74	H4 Histone H4.	82.52
PRK05707	328	DNA polymerase III subunit delta'; Validated	82.42
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	82.07
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	81.62
TIGR02653	675	Lon_rel_chp conserved hypothetical protein. This m	81.37
PRK09112	351	DNA polymerase III subunit delta'; Validated	80.21

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=100.00  E-value=1.3e-57  Score=405.89  Aligned_cols=213  Identities=56%  Similarity=0.832  Sum_probs=191.4

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      +++|+|++||+||||||||++|+..++.+||||||||+|||+|+|++++|||||+|+||+||.+|+|+++++ .+|++||
T Consensus       374 LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~Gryd~~~~~~enI~l~  453 (682)
T COG1241         374 LEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKFGRYDPKKTVAENINLP  453 (682)
T ss_pred             EeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCCCcCCCCCCHHHhcCCC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCC-----CCCChHHHHHHHHHhHhccCCCCCHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASD-----GELPLPVLKKYINYCRMRCGPRLTHEAGEK  154 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~-----~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~  154 (214)
                      ++|||||||+|++.|.++++.|+.+|+||+..|............     ..-+.++||+||.|||+++.|.++++|.+.
T Consensus       454 ~~lLSRFDLifvl~D~~d~~~D~~ia~hil~~h~~~~~~~~~~~~~~~~~~~~~~~~lrkYI~YAR~~v~P~lt~ea~e~  533 (682)
T COG1241         454 APLLSRFDLIFVLKDDPDEEKDEEIAEHILDKHRGEEPEETISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEAREE  533 (682)
T ss_pred             hhHHhhCCeeEEecCCCCccchHHHHHHHHHHHhccccccccccccccccccCcHHHHHHHHHHHhccCCcccCHHHHHH
Confidence            999999999999999999999999999999999754322100000     011678999999999998889999999999


Q ss_pred             HHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         155 LKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       155 i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      |.+||+.+|+.....+ .....++|+|+||++||||+||||+++++.|+++||.+|++|+
T Consensus       534 l~~~Yv~~Rk~~~~~~-~~~~~piT~RqLEsiiRLaeA~Ak~rLS~~V~~eD~~eAi~lv  592 (682)
T COG1241         534 LEDYYVEMRKKSALVE-EKRTIPITARQLESIIRLAEAHAKMRLSDVVEEEDVDEAIRLV  592 (682)
T ss_pred             HHHHHHHhhhcccccc-ccCcccccHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHH
Confidence            9999999998754211 3456899999999999999999999999999999999999874

>KOG0480|consensus

Probab=100.00  E-value=1.6e-57  Score=393.98  Aligned_cols=210  Identities=44%  Similarity=0.686  Sum_probs=193.8

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      +|||+|+|||+||||||||+||+.+++.+|+||||||+|||+|||...+||||.+||||+||..|+||..|+ .+|+++|
T Consensus       433 iEAGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv~GhYdR~ktl~eNi~ms  512 (764)
T KOG0480|consen  433 IEAGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPVGGHYDRKKTLRENINMS  512 (764)
T ss_pred             eecCcEEEccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCcCCccccccchhhhcCCC
Confidence            689999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      +||||||||+|++.|..|+..|..||+||+..|.......  .....++.+.+++||.|||+ +.|.++.+|.+.|.+.|
T Consensus       513 ApimSRFDL~FiLlD~~nE~~D~~ia~hIld~h~~i~~~~--~~~~~~~~e~vrkYi~yAR~-~~P~ls~ea~~~lve~Y  589 (764)
T KOG0480|consen  513 APIMSRFDLFFILLDDCNEVVDYAIARHILDLHRGIDDAT--ERVCVYTLEQVRKYIRYARN-FKPKLSKEASEMLVEKY  589 (764)
T ss_pred             chhhhhhcEEEEEecCCchHHHHHHHHHHHHHhccccccc--cccccccHHHHHHHHHHHHh-cCccccHHHHHHHHHHH
Confidence            9999999999999999999999999999999986643221  12347899999999999996 79999999999999999


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      ..+|.....+++ ..+.++|.|+||+|||||+|.||+++++.||++||++|++|.
T Consensus       590 ~~lR~~~~~~~~-~~s~~ITvRqLESlIRLsEA~Ar~~~~devt~~~v~ea~eLl  643 (764)
T KOG0480|consen  590 KGLRQRDAQGNN-RSSYRITVRQLESLIRLSEARARVECRDEVTKEDVEEAVELL  643 (764)
T ss_pred             HHHHHhhccccC-cccccccHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHHHHH
Confidence            999988754433 456899999999999999999999999999999999999873

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=100.00  E-value=5.3e-58  Score=386.37  Aligned_cols=211  Identities=53%  Similarity=0.847  Sum_probs=166.0

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      ++||++++|||||||||||++|+++++.+|+|+||+|+|+|+|+|+++++|++|+|+||+||..|+|+++++ .+|++++
T Consensus       112 leaGalvlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~  191 (331)
T PF00493_consen  112 LEAGALVLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLP  191 (331)
T ss_dssp             EEE-HHHHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-
T ss_pred             EeCCchhcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccc
Confidence            479999999999999999999999999999999999999999999999999999999999999999999988 8999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCC--cCC-CCCCChHHHHHHHHHhHhccCCCCCHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID--VAS-DGELPLPVLKKYINYCRMRCGPRLTHEAGEKLK  156 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~--~~~-~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~  156 (214)
                      .+|||||||+|.+.|.++.+.|..+++||++.|........  ... ...++.+.+++||.|||+++.|.+++++.++|.
T Consensus       192 ~~LLSRFDLif~l~D~~d~~~D~~la~~il~~~~~~~~~~~~~~~~~~~~~~~~~lr~yI~yar~~~~P~ls~ea~~~I~  271 (331)
T PF00493_consen  192 PPLLSRFDLIFLLRDKPDEEEDERLAEHILDSHRNGKKSKEKKIKKNDKPISEDLLRKYIAYARQNIHPVLSEEAKELII  271 (331)
T ss_dssp             CCCHCC-SEEECC--TTT-HHHHHHHHHHHTTT---S--------SSS-TT-HCCCHHHHHHHHHHC--EE-HHCHHHHH
T ss_pred             hhhHhhcCEEEEeccccccccccccceEEEeccccccccccccccccCCccCHHHHHHHHHHHHhhcccccCHHHHHHHH
Confidence            99999999999999999999999999999999876642110  111 258999999999999997789999999999999


Q ss_pred             HHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         157 NRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       157 ~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      +||+.+|+....   .....++|+|++|+|||||+|||||++|+.|+++||.+|++||
T Consensus       272 ~~Yv~lR~~~~~---~~~~~~iT~R~LeSLIRLseA~AKl~lr~~V~~~Dv~~Ai~L~  326 (331)
T PF00493_consen  272 NYYVELRKESKS---NNKSIPITIRQLESLIRLSEAHAKLRLRDEVTEEDVEEAIRLF  326 (331)
T ss_dssp             HHHCCCCHCHHC---HSS-B-SSCCCCCHHHHHHHHHHHCTTSSECSHHHHHHHHHHH
T ss_pred             HHHHHhcccccc---cccccccchhhHHHHHHHHHHHHHHhccCceeHHHHHHHHHHH
Confidence            999999987631   1234789999999999999999999999999999999999986

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>KOG0481|consensus

Probab=100.00  E-value=6.2e-56  Score=376.31  Aligned_cols=214  Identities=75%  Similarity=1.167  Sum_probs=197.7

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      +|+|++|||||||||||||+||.++++-++|||||||+|+|+|+|++++|++||+|+||+||.+|+||..|+ .+|+.+-
T Consensus       419 lEGGAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSRtSVLAAANpvfGRyDd~Kt~~dNIDf~  498 (729)
T KOG0481|consen  419 LEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRTSVLAAANPVFGRYDDTKTGEDNIDFM  498 (729)
T ss_pred             EecceEEEecCCEEEeehhhccCchhhhHHHHHHHhhhHHHhhhcceeeecchhhhhhhcCCccccccccCCcccccchh
Confidence            589999999999999999999999999999999999999999999999999999999999999999999997 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccC---CcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI---DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLK  156 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~---~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~  156 (214)
                      +.+||||||+|++.|.++++.|..||+||++.|....+..   ++...+.++.+.+|+||.|||.+|.|.||++|.+.|.
T Consensus       499 ~TILSRFDmIFIVKD~h~~~~D~~lAkHVI~vH~~~~n~~~~~~~~~~~ei~~~~~KryI~YcR~kc~PrLs~~AaekL~  578 (729)
T KOG0481|consen  499 PTILSRFDMIFIVKDEHDEERDITLAKHVINVHVSKANAQTDSQEENEGEIPIEKLKRYIQYCRLKCGPRLSAEAAEKLS  578 (729)
T ss_pred             hhHhhhccEEEEEeccCcchhhhHHHHHhhhhhccccccccCccccCCCcccHHHHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            9999999999999999999999999999999998632221   1235678899999999999999999999999999999


Q ss_pred             HHHHHHhcCCCc---CCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         157 NRYVLMRNGSKE---DGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       157 ~~y~~~r~~~~~---~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      +.|+.+|..-..   ......++|+|+|+||++||+++++|||+++..+|++||.+|++||
T Consensus       579 ~~yV~~R~~~~q~e~~s~~rssIPITVRQLEAIiRI~ESLAKm~Ls~~ate~hV~EA~RLF  639 (729)
T KOG0481|consen  579 SRYVTMRKGVRQHEQDSDKRSSIPITVRQLEAIIRIAESLAKMELSPFATEAHVEEALRLF  639 (729)
T ss_pred             HHHhHHHHHHHHhhhcccccCCCceeHHHHHHHHHHHHHHHhhcCCccccHHHHHHHHHHH
Confidence            999999866543   2356678999999999999999999999999999999999999998

>KOG0479|consensus

Probab=100.00  E-value=1.8e-54  Score=371.71  Aligned_cols=212  Identities=44%  Similarity=0.728  Sum_probs=193.5

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      ||||++||||+||+|||||+||++-++.++||+||||+|+|+|+|++.+|+|||+|+||+||.+|+||.+++ .+|+.|+
T Consensus       389 LEAGAMVLADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANPvyG~Yd~~k~P~eNIgLp  468 (818)
T KOG0479|consen  389 LEAGAMVLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANPVYGQYDQSKTPMENIGLP  468 (818)
T ss_pred             hhcCceEEccCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecCccccccCCCCChhhccCCc
Confidence            689999999999999999999999999999999999999999999999999999999999999999999998 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCC----------------------------c----------
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID----------------------------V----------  121 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~----------------------------~----------  121 (214)
                      .+||+||||+|++.|..|...|..|++||+++|......+.                            +          
T Consensus       469 DSLLSRFDLlFv~lD~~d~~~D~~iSeHVLRmHrY~~pg~~dGe~~~~g~~v~~~~~~~~e~~~et~v~ek~n~llhg~~  548 (818)
T KOG0479|consen  469 DSLLSRFDLLFVVLDDIDADIDRMISEHVLRMHRYLTPGEEDGEPVPEGNGVEGLSTENMEDKKETEVFEKFNTLLHGKA  548 (818)
T ss_pred             HHHHhhhcEEEEEeccccchHHHHHHHHHHHHhhccCCcccCCCcccCCCcccccccccccccccchhHhhhhhhhhccc
Confidence            99999999999999999999999999999999966433310                            0          


Q ss_pred             --CCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCC
Q psy7187         122 --ASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLE  199 (214)
Q Consensus       122 --~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r  199 (214)
                        ...+.++.+++|+||.|||+++.|.|+.++.++|.+.|..+|...... ......++|+|+||+|||||.||||++++
T Consensus       549 k~~~~k~lti~F~rKYIhyAk~ri~P~Lt~ea~e~Ia~~Y~~LR~~d~~~-d~~rt~PiTARtLETlIRLaTAhAKaRlS  627 (818)
T KOG0479|consen  549 KQQHEKLLTIDFMRKYIHYAKSRIKPKLTQEAAEYIAEEYTDLRNDDSRK-DQERTSPITARTLETLIRLATAHAKARLS  627 (818)
T ss_pred             cccccceeeHHHHHHHHHHHHhhcCccccHHHHHHHHHHHhhhhcccccc-ccccccCCcHHHHHHHHHHHHHHHHhhhc
Confidence              012356789999999999999899999999999999999999877643 23456799999999999999999999999


Q ss_pred             CCCcHHHHHHHHhc
Q psy7187         200 PFAIDSHVTEALRL  213 (214)
Q Consensus       200 ~~V~~~Dv~~Ai~l  213 (214)
                      +.|+.+|++.|+.|
T Consensus       628 k~V~~~DAe~A~~L  641 (818)
T KOG0479|consen  628 KVVEKDDAEAAVNL  641 (818)
T ss_pred             ceeehhhHHHHHHH
Confidence            99999999999876

>KOG0482|consensus

Probab=100.00  E-value=3e-55  Score=371.80  Aligned_cols=208  Identities=44%  Similarity=0.703  Sum_probs=193.4

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      +|+|+|||||+||||||||+||++.++.++||+||||+|||+|+|+.+||+|||+|+||+||.+|+|++..+ .+|++||
T Consensus       430 LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPayGRYnprrs~e~NI~LP  509 (721)
T KOG0482|consen  430 LEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAYGRYNPRRSPEQNINLP  509 (721)
T ss_pred             eccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCccccccCcccChhHhcCCc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999998 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      .+|||||||++.+.|.+|.+.|..+|+||...|+...+..  ..-..++.+.+|.||.+||++ +|.++++..++|..+|
T Consensus       510 aALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~--~~fepl~~~~mR~yI~~ak~~-~P~vp~~l~dyi~~AY  586 (721)
T KOG0482|consen  510 AALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPP--LDFEPLDPNLMRRYISLAKRK-NPVVPEALADYITGAY  586 (721)
T ss_pred             HHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCC--ccCCCCCHHHHHHHHHHHhhc-CCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999998765432  344578999999999999995 9999999999999999


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      +++|+....   .......|+|++.+|+|+|.|+|||++++.|.++||.+|++|+
T Consensus       587 v~~Rrea~~---~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALRLm  638 (721)
T KOG0482|consen  587 VELRREARS---SKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALRLM  638 (721)
T ss_pred             HHHHHHhhc---cCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHHHH
Confidence            999998763   2233578999999999999999999999999999999999984

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=100.00  E-value=4.2e-51  Score=371.74  Aligned_cols=214  Identities=33%  Similarity=0.600  Sum_probs=188.4

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      ++||+|++|+||+|||||+++|+++++.+|+++||+|+|+|.|+|++.++|++|.||||+||.+|+||++++ .+|++||
T Consensus       548 le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp  627 (915)
T PTZ00111        548 IQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINIS  627 (915)
T ss_pred             ccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCC
Confidence            479999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhc---cc--C------------C-----cCCCCCCChHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAG---QE--I------------D-----VASDGELPLPVLKKYIN  137 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~---~~--~------------~-----~~~~~~l~~~~l~~~i~  137 (214)
                      ++|||||||+|++.|.++++.|..||.||++.|....   ..  .            .     ......++.++|++||.
T Consensus       628 ~~LLSRFDLIf~l~D~~d~~~D~~lA~hI~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~lLrkYI~  707 (915)
T PTZ00111        628 PSLFTRFDLIYLVLDHIDQDTDQLISLSIAKDFLLPHMTGSGNDEDTYDRSNTMHVEDESLRSEKDYNKNDLDMLRMYIK  707 (915)
T ss_pred             hHHhhhhcEEEEecCCCChHHHHHHHHHHHHhhcccccccccccccchhccccccccccccccccccCCCCHHHHHHHHH
Confidence            9999999999999999999999999999998763210   00  0            0     00113478999999999


Q ss_pred             HhHhccCCCCCHHHHHHHHHHHHHHhcCCCc--------------------CCCCccccccCHHHHHHHHHHHHHHhccC
Q psy7187         138 YCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE--------------------DGEKKLNIPITVRQLEAIVRIAESMAKMQ  197 (214)
Q Consensus       138 ~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~--------------------~~~~~~~~~~s~R~l~~lirlA~a~A~l~  197 (214)
                      |||+++.|.|+++|.+.|.++|+.+|+....                    ........++|+|+||+|||||+|||||+
T Consensus       708 YAR~~~~P~Ls~eA~~~i~~~Yv~mR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iT~RqLEsLIRLsEA~AK~r  787 (915)
T PTZ00111        708 FSKLHCFPKLSDEAKKVITREYVKMRQGNFQTSNLDELEHAQEDDDDDLYYQSSGTRMIYVSSRMISSIIRISVSLARMR  787 (915)
T ss_pred             HHhccCCCCCCHHHHHHHHHHHHHHhhhhccccccccccccccccccccccccccCCcccccHHHHHHHHHHHHHHhhhc
Confidence            9999899999999999999999999974210                    00112347899999999999999999999


Q ss_pred             CCCCCcHHHHHHHHhcC
Q psy7187         198 LEPFAIDSHVTEALRLF  214 (214)
Q Consensus       198 ~r~~V~~~Dv~~Ai~lf  214 (214)
                      +++.|+++||.+|++||
T Consensus       788 Ls~~Vt~~Dv~~Ai~L~  804 (915)
T PTZ00111        788 LSTVVTPADALQAVQIV  804 (915)
T ss_pred             CcCcccHHHHHHHHHHH
Confidence            99999999999999985

>KOG0477|consensus

Probab=100.00  E-value=2.5e-51  Score=354.48  Aligned_cols=209  Identities=42%  Similarity=0.690  Sum_probs=193.1

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      ||+|+|||||+||||||||++|++.++.++|||||||.|+|+|+|++++|.|||+||||+||..|+|++..+ .+|.+|+
T Consensus       537 LEaGALVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPigGRY~~s~tFaqNV~lt  616 (854)
T KOG0477|consen  537 LEAGALVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRYNPSLTFAQNVDLT  616 (854)
T ss_pred             eccCeEEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCCCCccCCccchhhccccc
Confidence            689999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCc--------CC--CCCCChHHHHHHHHHhHhccCCCCCH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDV--------AS--DGELPLPVLKKYINYCRMRCGPRLTH  149 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~--------~~--~~~l~~~~l~~~i~~ar~~~~p~ls~  149 (214)
                      .|+|||||+..++.|..|+..|+++|+.|+..|........+        -.  -..++.+.||+||.|||.++.|.|..
T Consensus       617 ePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~lLrkyI~yar~~v~PkL~q  696 (854)
T KOG0477|consen  617 EPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQELLRKYIIYAREKVRPKLNQ  696 (854)
T ss_pred             cchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHHHHHHHHHHHHhccccccc
Confidence            999999999999999999999999999999999776543310        01  12478999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         150 EAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       150 ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      -..+.+.+.|+.+|+++-    ..+++++|.|++|++||+|+|||+|++|+.|+++|+..||+.
T Consensus       697 ~d~~K~s~vya~lRkES~----~tGs~piTvRHieS~ir~seAhArm~Lr~~V~~~d~~~AI~v  756 (854)
T KOG0477|consen  697 MDMDKISSVYADLRKESM----ATGSLPITVRHIESMIRMSEAHARMHLREYVTEEDVDMAIRV  756 (854)
T ss_pred             ccHHHHHHHHHHHHhhcc----ccCCchhhHHHHHHHHHHHHHHHHHHHHhhccHhHHHHHHHH
Confidence            889999999999999874    456789999999999999999999999999999999999874

>KOG0478|consensus

Probab=100.00  E-value=1.2e-50  Score=353.51  Aligned_cols=206  Identities=45%  Similarity=0.711  Sum_probs=190.6

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      +|.|+|+|||||||||||||||++..++.|||+||||+++|+|||+.++|||||+|+|++||..++|+++++ .+|++||
T Consensus       517 LesGALVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k~i~eNI~Lp  596 (804)
T KOG0478|consen  517 LESGALVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNKSIIENINLP  596 (804)
T ss_pred             eecCcEEEcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCCchhhccCCC
Confidence            579999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      ++||+||||+|.+.|.+|+-.|..|++||...+.....   ......++...++.||.|||+++.|.+++|+.+.+..+|
T Consensus       597 ptLLSRFDLIylllD~~DE~~Dr~La~HivsLy~e~~~---~~~~~~~d~~~lr~yi~yArk~i~p~l~~ea~~~l~~ay  673 (804)
T KOG0478|consen  597 PTLLSRFDLIFLLLDKPDERSDRRLADHIVALYPETGE---KQGSEAIDMNLLRDYIRYARKNIHPALSPEASQALIQAY  673 (804)
T ss_pred             hhhhhhhcEEEEEecCcchhHHHHHHHHHHHhcccccc---cchhHHHhHHHHHHHHHHHhccCCccccHHHHHHHHHHh
Confidence            99999999999999999999999999999999876432   123345788899999999999989999999999999999


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +.+|+.+...    .....++|++|+|+|+++|||++.+++.|...||++|++|
T Consensus       674 vd~rk~~~~~----~~itat~rQlesLiRlsEahak~r~s~~ve~~dV~eA~~l  723 (804)
T KOG0478|consen  674 VDMRKIGEGA----GQITATPRQLESLIRLSEAHAKMRLSNRVEEIDVEEAVRL  723 (804)
T ss_pred             hhhhhhcccc----cccchhHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHH
Confidence            9999887531    2367899999999999999999999999999999999876

>smart00350 MCM minichromosome maintenance proteins

Probab=100.00  E-value=2.4e-49  Score=350.75  Aligned_cols=213  Identities=55%  Similarity=0.834  Sum_probs=191.7

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFM   79 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~   79 (214)
                      ++||++++||+|+|||||+++|+++++..|+++||+|+|+|.|+|.+.++|++|.||||+||++|+|++.++ .+|++|+
T Consensus       291 ~~~G~l~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~  370 (509)
T smart00350      291 LEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLP  370 (509)
T ss_pred             ecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCC
Confidence            479999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      +++||||||+|.+.|.++.+.|.+|++|+++.|..............++.+.|++||.|||+++.|.+++++.++|.++|
T Consensus       371 ~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~~~~~~~~~~~~~~~~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y  450 (509)
T smart00350      371 APILSRFDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEPDEADEVPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAY  450 (509)
T ss_pred             hHHhCceeeEEEecCCCChHHHHHHHHHHHHhhcccCccccccccccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999988754321111123357899999999999999789999999999999999


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      ..+|...... ......++|+|++++|+|+|+|+|+|++|++|+++||.+|++||
T Consensus       451 ~~~R~~~~~~-~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~Dv~~ai~l~  504 (509)
T smart00350      451 VDLRKEDSQS-EARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEADVEEAIRLL  504 (509)
T ss_pred             HHhccccccc-ccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHH
Confidence            9999865421 01134789999999999999999999999999999999999985

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

Probab=100.00  E-value=9.2e-36  Score=253.73  Aligned_cols=189  Identities=21%  Similarity=0.307  Sum_probs=163.7

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCCCc-----c---
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDDTK-----G---   72 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~~~-----~---   72 (214)
                      +||+++||||||+|+||+.+|+++++++|+||||+|+|+|+|++..++|||+|++++||||| ||++....     +   
T Consensus       275 ~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g~i~IsRa~~~v~ypa~Fqlv~AmNpcpcG~~~~~~~~C~c~~~~  354 (490)
T COG0606         275 RPGEISLAHNGVLFLDELPEFKRSILEALREPLENGKIIISRAGSKVTYPARFQLVAAMNPCPCGNLGAPLRRCPCSPRQ  354 (490)
T ss_pred             CCCceeeecCCEEEeeccchhhHHHHHHHhCccccCcEEEEEcCCeeEEeeeeEEhhhcCCCCccCCCCCCCCcCCCHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999 89876432     1   


Q ss_pred             --cccccCCCCCCCcccEEEEecCCC---------CccccHHHHHHHHHHHHhhcccCCcC-CCCCCChHHHHHHHHHhH
Q psy7187          73 --EQNIDFMPTILSRFDMIFIIKDEH---------DETRDITLAKHIMKVHMTAGQEIDVA-SDGELPLPVLKKYINYCR  140 (214)
Q Consensus        73 --~~~~~l~~~lldRFDL~~~~~~~~---------~~~~d~~ia~~il~~~~~~~~~~~~~-~~~~l~~~~l~~~i~~ar  140 (214)
                        .|+.+||+||+|||||.+.+...+         ..+....++.+|..++..+..+.... .|..++.+.|++|+    
T Consensus       355 ~~~Y~~klSgp~lDRiDl~vev~~~~~~e~~~~~~~~ess~~v~~rVa~AR~~Q~~R~~~~~~Na~l~~~~l~k~~----  430 (490)
T COG0606         355 IKRYLNKLSGPFLDRIDLMVEVPRLSAGELIRQVPTGESSAGVRERVAKAREAQIARAGRIGINAELSEEALRKFC----  430 (490)
T ss_pred             HHHHHHHhhHHHHhhhhheecccCCCHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHhhccCcchhcCHHHHHHhc----
Confidence              477899999999999999987653         23467899999999887765554222 47888999999973    


Q ss_pred             hccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         141 MRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       141 ~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                           .++.++.+++......              +++|.|.++.++|+|+++|+|++.+.|...|+.+|+++
T Consensus       431 -----~L~~~~~~~L~~al~~--------------~~lS~R~~~rILKvarTiADL~g~~~i~~~hl~eAi~y  484 (490)
T COG0606         431 -----ALQREDADLLKAALER--------------LGLSARAYHRILKVARTIADLEGSEQIERSHLAEAISY  484 (490)
T ss_pred             -----ccCHhHHHHHHHHHHh--------------cchhHHHHHHHHHHHhhhhcccCcchhhHHHHHHHHhh
Confidence                 3788888888774432              67899999999999999999999999999999999974

>TIGR00368 Mg chelatase-related protein

Probab=100.00  E-value=7.6e-35  Score=256.00  Aligned_cols=189  Identities=19%  Similarity=0.310  Sum_probs=164.9

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCCC-----cc---
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDDT-----KG---   72 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~~-----~~---   72 (214)
                      +||++.+||+|||||||+++|++++++.|+++||+|.|+|.|.|...++|++|.+|||+||| ||+|+..     ++   
T Consensus       287 ~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~  366 (499)
T TIGR00368       287 LPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQ  366 (499)
T ss_pred             chhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999 9999642     22   


Q ss_pred             --cccccCCCCCCCcccEEEEecCCC--------CccccHHHHHHHHHHHHhhcccCCc----CCCCCCChHHHHHHHHH
Q psy7187          73 --EQNIDFMPTILSRFDMIFIIKDEH--------DETRDITLAKHIMKVHMTAGQEIDV----ASDGELPLPVLKKYINY  138 (214)
Q Consensus        73 --~~~~~l~~~lldRFDL~~~~~~~~--------~~~~d~~ia~~il~~~~~~~~~~~~----~~~~~l~~~~l~~~i~~  138 (214)
                        .|+.++|+||+|||||++.+.+..        ..+++..++++|...+..+..++..    ..|+.++...+++|   
T Consensus       367 ~~~y~~~is~pllDR~dl~~~~~~~~~~~l~~~~~~e~s~~ir~rV~~Ar~~q~~R~~~~~~~~~N~~l~~~~l~~~---  443 (499)
T TIGR00368       367 ISRYWNKLSGPFLDRIDLSVEVPLLPPEKLLSTGSGESSAEVKQRVIKAREIQNIRYEKFANINKNADLNSDEIEQF---  443 (499)
T ss_pred             HHHHhhhccHhHHhhCCEEEEEcCCCHHHHhccCCCCCHHHHHHHHHHHHHHHHHHhcCCCCCcccccCCHHHHHhh---
Confidence              467799999999999999988642        2356788999999888777555321    23788899999987   


Q ss_pred             hHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         139 CRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       139 ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                          +  .+++++.+++.++|..              .++|.|+.++++|+|||+|+|++++.|+.+|+.+|+++
T Consensus       444 ----~--~l~~~~~~~l~~a~~~--------------~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~~  498 (499)
T TIGR00368       444 ----C--KLSAIDANDLEGALNK--------------LGLSSRATHRILKVARTIADLKEEKNISREHLAEAIEY  498 (499)
T ss_pred             ----c--CCCHHHHHHHHHHHHh--------------cCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhc
Confidence                3  3799999999988864              46899999999999999999999999999999999975

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=100.00  E-value=9.1e-35  Score=254.67  Aligned_cols=188  Identities=19%  Similarity=0.316  Sum_probs=160.0

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCCC-c--c-----
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDDT-K--G-----   72 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~~-~--~-----   72 (214)
                      +||++.+||||+||+||+++|++++++.|+++||+|.++|.+.|...++|++|.+|||+||| ||+|+.. +  +     
T Consensus       286 ~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~  365 (506)
T PRK09862        286 GPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTL  365 (506)
T ss_pred             hhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999 8988642 2  2     


Q ss_pred             cccccCCCCCCCcccEEEEecCCC---------CccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhcc
Q psy7187          73 EQNIDFMPTILSRFDMIFIIKDEH---------DETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRC  143 (214)
Q Consensus        73 ~~~~~l~~~lldRFDL~~~~~~~~---------~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~  143 (214)
                      .|+.+||+|+||||||.+.+....         +.+....+.++|...+..+..+. ...+..++...+++|+       
T Consensus       366 ~Y~~~ls~plLDRfdL~v~v~~~~~~~l~~~~~~~ess~~i~~rV~~ar~~q~~r~-~~~n~~l~~~~l~~~~-------  437 (506)
T PRK09862        366 RYLNRLSGPFLDRFDLSLEIPLPPPGILSKTVVPGESSATVKQRVMAARERQFKRQ-NKLNAWLDSPEIRQFC-------  437 (506)
T ss_pred             HHHhhCCHhHHhhccEEEEeCCCCHHHHhcccCCCCChHHHHHHHhhHHHHHHHHH-HHHhcccCHHHHHHHh-------
Confidence            467799999999999999988652         23556678888887665543331 2336677778888774       


Q ss_pred             CCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         144 GPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       144 ~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                        .+++++.+++..+|..              .++|+|+..+++|+|||+|+|+++++|+++|+.+|+.+
T Consensus       438 --~l~~~~~~~l~~~~~~--------------~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~y  491 (506)
T PRK09862        438 --KLESEDARWLEETLIH--------------LGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSY  491 (506)
T ss_pred             --CCCHHHHHHHHHHHHH--------------cCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence              3788999999888754              56899999999999999999999999999999999875

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=99.96  E-value=1.3e-28  Score=219.89  Aligned_cols=164  Identities=16%  Similarity=0.181  Sum_probs=132.6

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      ++||+|.+||+||||+||+|++++.++++|+|+||+|+|+|+|+|.++++|++|.|||+.||..         |...||+
T Consensus        84 ~~pGlla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~---------~~~~L~~  154 (584)
T PRK13406         84 AQRGLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAE---------EDERAPA  154 (584)
T ss_pred             CCCCceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChh---------cccCCCH
Confidence            4799999999999999999999999999999999999999999999999999999999988751         2346999


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhcc-CCCCCHHHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRC-GPRLTHEAGEKLKNRY  159 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~-~p~ls~ea~~~i~~~y  159 (214)
                      +|+|||||.+.+......+..             .         ...+.+    -|.-||+.+ +..++++..+++...+
T Consensus       155 ~lLDRf~l~v~v~~~~~~~~~-------------~---------~~~~~~----~I~~AR~rl~~v~v~~~~l~~i~~~~  208 (584)
T PRK13406        155 ALADRLAFHLDLDGLALRDAR-------------E---------IPIDAD----DIAAARARLPAVGPPPEAIAALCAAA  208 (584)
T ss_pred             HhHhheEEEEEcCCCChHHhc-------------c---------cCCCHH----HHHHHHHHHccCCCCHHHHHHHHHHH
Confidence            999999999998765432210             0         011111    222223211 3467888888888776


Q ss_pred             HHHhcCCCcCCCCcccccc-CHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         160 VLMRNGSKEDGEKKLNIPI-TVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~-s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      ..              .++ |+|+...++|+|+|+|+|+++++|+.+||.+|+.+
T Consensus       209 ~~--------------~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~l  249 (584)
T PRK13406        209 AA--------------LGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARL  249 (584)
T ss_pred             HH--------------hCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            54              455 99999999999999999999999999999999875

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

Probab=99.95  E-value=3.8e-29  Score=195.00  Aligned_cols=94  Identities=23%  Similarity=0.376  Sum_probs=55.5

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCC-C--c--c---
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDD-T--K--G---   72 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~-~--~--~---   72 (214)
                      +||++++||+||||+||+++|++.++++|+++||+|.|+|+|+|.++++||+|++||||||| ||+|.. .  +  +   
T Consensus        98 ~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~~~~C~Cs~~~  177 (206)
T PF01078_consen   98 RPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDPDNRCRCSPRQ  177 (206)
T ss_dssp             EE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-S-------------------
T ss_pred             CcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEEEeccccccccccccccccccccc
Confidence            69999999999999999999999999999999999999999999999999999999999999 898752 1  1  2   


Q ss_pred             --cccccCCCCCCCcccEEEEecCC
Q psy7187          73 --EQNIDFMPTILSRFDMIFIIKDE   95 (214)
Q Consensus        73 --~~~~~l~~~lldRFDL~~~~~~~   95 (214)
                        .|+.+||+||+|||||.+.+...
T Consensus       178 ~~~Y~~rlsgpllDRiDi~v~~~~~  202 (206)
T PF01078_consen  178 IRRYQSRLSGPLLDRIDIHVEVPRV  202 (206)
T ss_dssp             -------------------------
T ss_pred             ccccccccccccccccccccccccc
Confidence              68889999999999999987643

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

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.95  E-value=2.6e-27  Score=214.81  Aligned_cols=182  Identities=16%  Similarity=0.218  Sum_probs=149.6

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      ++|.|.+||+|||||||+++|++++++.|+++|++|++++++.|.+.++|++|.||||+||+.|.           |+.+
T Consensus       118 ~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~-----------l~~~  186 (633)
T TIGR02442       118 QPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGD-----------LRPQ  186 (633)
T ss_pred             cCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCC-----------CCHH
Confidence            68999999999999999999999999999999999999999999999999999999999998775           8999


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHhccC-CCCCHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRMRCG-PRLTHEAGEKLKNR  158 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~  158 (214)
                      |+|||+|.+.+....+.+.+.++..+.+......     ......|  ....+.++|..++.... +.+++++.++|..+
T Consensus       187 L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~-----~~~~~~~~~~~~~l~~~i~~ar~~~~~V~is~~~~~~l~~~  261 (633)
T TIGR02442       187 LLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADP-----EAFAARWAAEQEELRNRIARARSLLPSVRISDSLIRFISEL  261 (633)
T ss_pred             HHhhcceEEEccCCCchHHHHHHHHHHHhhccCc-----HHHHHHhhhhHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Confidence            9999999998887665555555554443321110     0011122  23467788988987532 46799999999999


Q ss_pred             HHHHhcCCCcCCCCcccccc-CHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         159 YVLMRNGSKEDGEKKLNIPI-TVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       159 y~~~r~~~~~~~~~~~~~~~-s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +..+              ++ ++|+...++|+|+|+|+|++|++|+++|+.+|+++
T Consensus       262 ~~~~--------------~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~l  303 (633)
T TIGR02442       262 CIEF--------------GVDGHRADIVMARAARALAALDGRRRVTAEDVREAAEL  303 (633)
T ss_pred             HHHh--------------CCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence            9764              33 68999999999999999999999999999999876

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.95  E-value=1.1e-26  Score=208.87  Aligned_cols=179  Identities=15%  Similarity=0.173  Sum_probs=150.1

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC--CCCCCCcccccccC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF--GRWDDTKGEQNIDF   78 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~--g~~~~~~~~~~~~l   78 (214)
                      ++||.|..||||++||||++.+++++++.|+++|++|+|++.|.|.+.++|++|.||||+||+.  |           .|
T Consensus        75 ~~~G~L~~A~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g-----------~L  143 (589)
T TIGR02031        75 TQPGLLDEAPRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGG-----------GL  143 (589)
T ss_pred             CCCCCeeeCCCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccC-----------CC
Confidence            4689999999999999999999999999999999999999999999999999999999999984  4           39


Q ss_pred             CCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHH
Q psy7187          79 MPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKN  157 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~  157 (214)
                      +++|+|||++++.+...++......|.++.+....         .....+...++++|..+|+.+. ..+++++.++|..
T Consensus       144 ~~~LldRf~l~v~~~~~~~~~er~eil~~~~~~~~---------~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~  214 (589)
T TIGR02031       144 PDHLLDRLALHVSLEDVASQDLRVEIVRRERCNEV---------FRMNDELELLRGQIEAARELLPQVTISAEQVKELVL  214 (589)
T ss_pred             CHHHHHhccCeeecCCCCCHHHHHHHHHHHHHhhh---------hhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHH
Confidence            99999999999988877765555555555442111         0112345678889999998533 3679999999999


Q ss_pred             HHHHHhcCCCcCCCCcccccc-CHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPI-TVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~-s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      ++..+              ++ ++|+...++|+|+|+|.|++|++|+++||.+|+.+
T Consensus       215 ~~~~~--------------gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~l  257 (589)
T TIGR02031       215 TAASL--------------GISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVEL  257 (589)
T ss_pred             HHHHc--------------CCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            98653              23 58999999999999999999999999999999875

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.94  E-value=1.2e-26  Score=195.73  Aligned_cols=184  Identities=17%  Similarity=0.204  Sum_probs=144.5

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      ++||.|..||+||+++||+|.+++.+++.|+++|++|+.+|++.|++.++|++|.+||||||.+|.           |.+
T Consensus       135 f~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGe-----------Lrp  203 (423)
T COG1239         135 FQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGE-----------LRP  203 (423)
T ss_pred             cCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccc-----------cch
Confidence            589999999999999999999999999999999999999999999999999999999999999886           999


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHhccC-CCCCHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRMRCG-PRLTHEAGEKLKN  157 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~  157 (214)
                      +|+|||++.+-+.-+.+.+....|.++.+...    ..+ +..-..|  ....+|..|.-||+-+. ..+++.+..++..
T Consensus       204 qLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f~----~~P-e~f~~~~~~~~~~lR~~ii~ar~~l~~V~l~~~~~~~ia~  278 (423)
T COG1239         204 QLLDRFGLEVDTHYPLDLEERVEIIRRRLAFE----AVP-EAFLEKYADAQRALRARIIAARSLLSEVELDDDAETKIAE  278 (423)
T ss_pred             hhHhhhcceeeccCCCCHHHHHHHHHHHHHhh----cCc-HHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHH
Confidence            99999999998876666555555544444431    000 0111112  23456666666766321 3567788888877


Q ss_pred             HHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      ....+--             -+.|+...+.|+|+|+|.+.|+.+|+.+|+.+|+.|
T Consensus       279 ~~~~~~v-------------~g~radi~~~r~a~a~aa~~Gr~~v~~~Di~~a~~l  321 (423)
T COG1239         279 LCARLAV-------------DGHRADIVVVRAAKALAALRGRTEVEEEDIREAAEL  321 (423)
T ss_pred             HHHHhcc-------------CCCchhhHHHHHHHHHHHhcCceeeehhhHHHHHhh
Confidence            6654311             137888899999999999999999999999999875

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.93  E-value=1.9e-25  Score=188.08  Aligned_cols=184  Identities=15%  Similarity=0.152  Sum_probs=143.7

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      +++|.+..||+|++|+||++.++++.++.|+++|++|.+++.+.|.+..+|++|.++|++||..|.           |++
T Consensus       122 ~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~-----------l~~  190 (337)
T TIGR02030       122 FEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGE-----------LRP  190 (337)
T ss_pred             eecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCC-----------CCH
Confidence            478999999999999999999999999999999999999999999999999999999999998775           899


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHhccC-CCCCHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRMRCG-PRLTHEAGEKLKN  157 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~  157 (214)
                      +|+|||.+.+.+....+.+...+|    ++......... ......+  ....+.+.|..+|+.+. ..+++++.+++..
T Consensus       191 ~LldRf~l~i~l~~p~~~eer~eI----L~~~~~~~~~~-~~~~~~~~~e~~~~~~~I~~a~~~~~~V~v~d~~~~~i~~  265 (337)
T TIGR02030       191 QLLDRFGLHAEIRTVRDVELRVEI----VERRTEYDADP-HAFCEKWQTEQEALQAKIVNAQNLLPQVTIPYDVLVKVAE  265 (337)
T ss_pred             HHHhhcceEEECCCCCCHHHHHHH----HHhhhhcccCc-hhhhhhhhhhhhcCHHHHHHHHHHhccCcCCHHHHHHHHH
Confidence            999999998888766443333333    33221110000 0000011  12345667777776432 4689999999999


Q ss_pred             HHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .+..+|.             -|+|+...++|.|+|+|.|++|++|+++||+.|+.+
T Consensus       266 l~~~~~~-------------~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~  308 (337)
T TIGR02030       266 LCAELDV-------------DGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVL  308 (337)
T ss_pred             HHHHHCC-------------CCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            9877542             168999999999999999999999999999998764

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.93  E-value=2.4e-25  Score=187.56  Aligned_cols=184  Identities=14%  Similarity=0.172  Sum_probs=142.9

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      +++|.|..||+|++|+||++.++++.++.|+++|++|++++.|.|.+..+|++|.++|++||.+|.           |++
T Consensus       135 ~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~-----------l~~  203 (350)
T CHL00081        135 FEPGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGE-----------LRP  203 (350)
T ss_pred             ccCCeeeecCCCEEEecChHhCCHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCC-----------CCH
Confidence            379999999999999999999999999999999999999999999999999999999999998775           899


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHhccC-CCCCHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRMRCG-PRLTHEAGEKLKN  157 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~  157 (214)
                      .|+|||.|.+.+....+.+...+|.++....    .... ......+  .......-|.-+|+.+. ..++++..++|.+
T Consensus       204 ~LldRf~l~i~l~~~~~~~~e~~il~~~~~~----~~~~-~~~~~~~~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~  278 (350)
T CHL00081        204 QLLDRFGMHAEIRTVKDPELRVKIVEQRTSF----DKNP-QEFREKYEESQEELRSKIVAAQNLLPKVEIDYDLRVKISQ  278 (350)
T ss_pred             HHHHHhCceeecCCCCChHHHHHHHHhhhcc----ccCh-hhhhhhhccccccCHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence            9999999999988765545554444332210    0000 0000000  01113334444554332 5789999999999


Q ss_pred             HHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      ....+|.             .|+|+...++|.|+|+|.|++|++|+++||+.++.+
T Consensus       279 l~~~~~~-------------~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~  321 (350)
T CHL00081        279 ICSELDV-------------DGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITL  321 (350)
T ss_pred             HHHHHCC-------------CCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            9887643             279999999999999999999999999999998764

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.93  E-value=7.7e-25  Score=184.01  Aligned_cols=183  Identities=15%  Similarity=0.188  Sum_probs=139.2

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      ++||.+..||+|++|+||+|.++++.++.|+++|++|.+++++.|.++.+|++|.++|++||..|.           +++
T Consensus       119 ~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~-----------l~~  187 (334)
T PRK13407        119 FEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGE-----------LRP  187 (334)
T ss_pred             ecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCC-----------CCH
Confidence            469999999999999999999999999999999999999999999999999999999999998665           899


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHhcc-CCCCCHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRMRC-GPRLTHEAGEKLKN  157 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~~~-~p~ls~ea~~~i~~  157 (214)
                      +|+|||.+.+.+..+.+.+...++..+    ........ ......+  .......-|..+|+.+ ...++++..++|.+
T Consensus       188 aLldRF~~~v~v~~~~~~~e~~~il~~----~~~~~~~~-~~~~~~~~~~~~~~~~~i~~a~~~~~~V~v~~~~~~yi~~  262 (334)
T PRK13407        188 QLLDRFGLSVEVRSPRDVETRVEVIRR----RDAYDADH-DAFMAKWGAEDMQLRGRILGARARLPQLKTPNTVLHDCAA  262 (334)
T ss_pred             HHHhhcceEEEcCCCCcHHHHHHHHHH----hhcccccc-hhhhccccccccCCHHHHHHHHHhcCCcccCHHHHHHHHH
Confidence            999999999988655543433333322    21110000 0010011  1112223344444432 24689999999999


Q ss_pred             HHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ....+|..             |+|+...++|.|+|+|.+++|++|+++|++.+..
T Consensus       263 l~~~~~~~-------------s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~  304 (334)
T PRK13407        263 LCIALGSD-------------GLRGELTLLRAARALAAFEGAEAVGRSHLRSVAT  304 (334)
T ss_pred             HHHHHCCC-------------CchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHH
Confidence            98776532             6899999999999999999999999999988764

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.76  E-value=3.5e-17  Score=142.29  Aligned_cols=178  Identities=11%  Similarity=0.062  Sum_probs=128.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+  ++|+|||++++++++++|+++|+++.+++  +|.+..+|.+|.++|+ ||...         ...+-.++
T Consensus       102 ~G~L~~A~--lLfLDEI~rasp~~QsaLLeam~Er~~t~--g~~~~~lp~rfiv~AT-N~LPE---------~g~~leAL  167 (498)
T PRK13531        102 SGYLPEAE--IVFLDEIWKAGPAILNTLLTAINERRFRN--GAHEEKIPMRLLVTAS-NELPE---------ADSSLEAL  167 (498)
T ss_pred             CCcccccc--EEeecccccCCHHHHHHHHHHHHhCeEec--CCeEEeCCCcEEEEEC-CCCcc---------cCCchHHh
Confidence            45455555  89999999999999999999999999998  8889999999999888 88421         00144699


Q ss_pred             CCcccEEEEecCCCC-ccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHD-ETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVL  161 (214)
Q Consensus        83 ldRFDL~~~~~~~~~-~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~  161 (214)
                      +||| ++-+..++++ .+....    ++.......... ......++.+.+......+++   ..+++...++|.+....
T Consensus       168 ~DRF-liri~vp~l~~~~~e~~----lL~~~~~~~~~~-~~~~~vis~eel~~lq~~v~~---V~v~d~v~eyI~~L~~~  238 (498)
T PRK13531        168 YDRM-LIRLWLDKVQDKANFRS----MLTSQQDENDNP-VPASLQITDEEYQQWQKEIGK---ITLPDHVFELIFQLRQQ  238 (498)
T ss_pred             HhhE-EEEEECCCCCchHHHHH----HHHcccccccCC-CcccCCCCHHHHHHHHHHhcc---eeCCHHHHHHHHHHHHH
Confidence            9999 5444444443 222122    333221100010 112345777888777766665   36899999999988877


Q ss_pred             HhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHH
Q psy7187         162 MRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEA  210 (214)
Q Consensus       162 ~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~A  210 (214)
                      +|....       ...+|+|....++++++|+|.++||++|+++|+..|
T Consensus       239 lr~~r~-------~~~~SpR~~~~l~~~akA~A~l~GR~~V~p~Dv~ll  280 (498)
T PRK13531        239 LDALPN-------APYVSDRRWKKAIRLLQASAFFSGRDAIAPIDLILL  280 (498)
T ss_pred             HhcCCC-------CCCcCcHHHHHHHHHHHHHHHHCCCCCCCHHHHHHh
Confidence            665442       134899999999999999999999999999999844

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.76  E-value=8.5e-18  Score=151.84  Aligned_cols=169  Identities=22%  Similarity=0.282  Sum_probs=128.6

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecc-----e---EEEEeCceEEEEeecCCCCCCCCCcc
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAG-----I---TTTLNSRCSVLAAANSVFGRWDDTKG   72 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g-----~---~~~lpa~~~viaa~Np~~g~~~~~~~   72 (214)
                      ++||.|..||||++||||++.+++..+..|+++|++|++++....     .   ....|+++.||+++||..        
T Consensus       208 i~~G~L~~AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~--------  279 (608)
T TIGR00764       208 VEAGAIHRAHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDD--------  279 (608)
T ss_pred             CCCCceEECCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHH--------
Confidence            479999999999999999999999999999999999999995531     1   235789999999999962        


Q ss_pred             cccccCCCCCCCccc---EEEEecCCCCc--cccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhc-cCCC
Q psy7187          73 EQNIDFMPTILSRFD---MIFIIKDEHDE--TRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMR-CGPR  146 (214)
Q Consensus        73 ~~~~~l~~~lldRFD---L~~~~~~~~~~--~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~-~~p~  146 (214)
                        ...+.++|++||+   +.+.+.+..+.  +....++.++.+.                           ++.+ ..|.
T Consensus       280 --l~~l~~~l~~rf~~y~v~v~~~~~~~~~~e~~~~~~~~i~~~---------------------------~~r~G~l~~  330 (608)
T TIGR00764       280 --LEGMHPALRSRIRGYGYEVYMKDTMPDTPENRDKLVQFVAQE---------------------------VKKDGRIPH  330 (608)
T ss_pred             --HhhcCHHHHHHhcCCeEEEEeeccCCCCHHHHHHHHHHHHHH---------------------------HHHhCCCCc
Confidence              2248899999999   66666544332  2222233322221                           1221 2467


Q ss_pred             CCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         147 LTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       147 ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +++++...|.++|...  .+     ....++++.|.+..++|.|.++|+.++++.|+.+||.+|++.
T Consensus       331 ~s~~Av~~Li~~~~R~--ag-----~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~  390 (608)
T TIGR00764       331 FTRDAVEEIVREAQRR--AG-----RKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKL  390 (608)
T ss_pred             CCHHHHHHHHHHHHHH--Hh-----cccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHH
Confidence            9999999999887542  22     122468899999999999999999999999999999999763

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

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

Probab=99.60  E-value=1.1e-14  Score=123.22  Aligned_cols=188  Identities=16%  Similarity=0.166  Sum_probs=130.6

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceE-EEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGIT-TTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~-~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      .+|-+..+.++|+++||||+.+++++++|+++|+++.+++  .|.. +.+|..|.|+||+||.+..       ....|+.
T Consensus       104 ~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv--~~~~~~~~~~~f~viaT~Np~e~~-------g~~~l~e  174 (329)
T COG0714         104 VPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTV--PGLTTIRLPPPFIVIATQNPGEYE-------GTYPLPE  174 (329)
T ss_pred             ecCCcccccceEEEEeccccCCHHHHHHHHHHHhCcEEEE--CCcCCcCCCCCCEEEEccCccccC-------CCcCCCH
Confidence            4677778888999999999999999999999999999999  6666 8999999999999997321       2235899


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhccc-CCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQE-IDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~-~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      +++|||-+ ....+.++....+.   .+.......... ........++...+.+.-...+   ...++++..+++...+
T Consensus       175 A~ldRf~~-~~~v~yp~~~~e~~---~i~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~  247 (329)
T COG0714         175 ALLDRFLL-RIYVDYPDSEEEER---IILARVGGVDELDLESLVKPVLSDEELLRLQKEVK---KVPVSDEVIDYIVTLV  247 (329)
T ss_pred             HHHhhEEE-EEecCCCCchHHHH---HHHHhCccccccccchhhhhhhCHHHHHHHHhhhc---cCCchHHHHHHHHHHH
Confidence            99999954 44445553332221   122221110100 0011122333333333222221   3457889999988888


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      ...|....      ...+.++|....++..+++.|.+.++..+.++|+....
T Consensus       248 ~~~~~~~~------~~~~~s~r~~~~~~~~~~~~a~~~~~~~~~~~dv~~~~  293 (329)
T COG0714         248 AALREAPD------VALGASPRASLALLAALRALALLDGRDAVIPDDVKALA  293 (329)
T ss_pred             Hhhccccc------hhccCCchhHHHHHHHHHhhhhhcCccccCHHHHHHHh
Confidence            77665432      23678999999999999999999999999999987654

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.55  E-value=1.1e-13  Score=125.18  Aligned_cols=166  Identities=21%  Similarity=0.308  Sum_probs=122.8

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEec----ce----EEEEeCceEEEEeecCCCCCCCCCcc
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKA----GI----TTTLNSRCSVLAAANSVFGRWDDTKG   72 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~----g~----~~~lpa~~~viaa~Np~~g~~~~~~~   72 (214)
                      ++||.|..||||++||||++.|++..+..|+++|++|++.+...    +.    ....|+++.||+++||.-        
T Consensus       217 i~~G~L~kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~l--------  288 (637)
T PRK13765        217 VEAGAIHKAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDA--------  288 (637)
T ss_pred             CCCCceeECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCH--------
Confidence            58999999999999999999999999999999999999988422    11    456899999999999951        


Q ss_pred             cccccCCCCCCCccc---EEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhcc-----C
Q psy7187          73 EQNIDFMPTILSRFD---MIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRC-----G  144 (214)
Q Consensus        73 ~~~~~l~~~lldRFD---L~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~-----~  144 (214)
                        ...+.+.|.+||.   .-+.+.+..+                             .+.+..++|+.++.+.+     .
T Consensus       289 --l~~~dpdL~~rfk~~~v~v~f~~~~~-----------------------------d~~e~~~~~~~~iaqe~~~~G~l  337 (637)
T PRK13765        289 --LENMHPALRSRIKGYGYEVYMRDTME-----------------------------DTPENRRKLVRFVAQEVKRDGKI  337 (637)
T ss_pred             --HHhhhHHHHHHhccCeEEEEcccccC-----------------------------CCHHHHHHHHHHHHHHhhhccCC
Confidence              1124566777775   3333322221                             12334444554443221     4


Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      |.++++|...|.++|..  ..+.     ...+.+..|.+..|+|.|-.+|+...++.|+.+||..|+.
T Consensus       338 ~~f~~eAVa~LI~~~~R--~ag~-----r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~  398 (637)
T PRK13765        338 PHFDRDAVEEIIREAKR--RAGR-----KGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKK  398 (637)
T ss_pred             CCCCHHHHHHHHHHHHH--HhCC-----ccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHH
Confidence            67999999999999864  2222     2235677899999999999999999999999999998863

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

Probab=99.53  E-value=7.3e-15  Score=106.27  Aligned_cols=67  Identities=27%  Similarity=0.361  Sum_probs=51.6

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+|+++||||+.+++++++|+|+|++++|++  .|.++.+|..|.||||+||.+..       ..+.||.+++|||
T Consensus        63 ~~ill~DEiNrappktQsAlLeam~Er~Vt~--~g~~~~lp~pf~ViATqNp~e~~-------Gty~Lpea~~DRF  129 (131)
T PF07726_consen   63 TNILLADEINRAPPKTQSALLEAMEERQVTI--DGQTYPLPDPFFVIATQNPVEQE-------GTYPLPEAQLDRF  129 (131)
T ss_dssp             SSEEEEETGGGS-HHHHHHHHHHHHHSEEEE--TTEEEE--SS-EEEEEE-TT--S-------------HHHHTTS
T ss_pred             hceeeecccccCCHHHHHHHHHHHHcCeEEe--CCEEEECCCcEEEEEecCccccC-------ceecCCHHHhccc
Confidence            4799999999999999999999999999999  99999999999999999997321       2346999999999

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

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.49  E-value=4.8e-13  Score=109.78  Aligned_cols=154  Identities=12%  Similarity=0.195  Sum_probs=107.5

Q ss_pred             cceeec--cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEec---ceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187           3 GGAMVL--ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKA---GITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus         3 ~G~l~l--a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~---g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      +|.+..  ++||++++||++++++++++.|+++|++|.+++...   +.....+.+|.||+|+||...       .....
T Consensus        96 ~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~-------~g~~~  168 (262)
T TIGR02640        96 DNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEY-------AGVHE  168 (262)
T ss_pred             CchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccc-------cceec
Confidence            566654  688999999999999999999999999999998532   345667789999999999621       01224


Q ss_pred             CCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHH
Q psy7187          78 FMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKN  157 (214)
Q Consensus        78 l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~  157 (214)
                      ++.+|++|| ..+.+ +.++.+...+    |+..+                              +  .++++..+.+.+
T Consensus       169 l~~aL~~R~-~~i~i-~~P~~~~e~~----Il~~~------------------------------~--~~~~~~~~~iv~  210 (262)
T TIGR02640       169 TQDALLDRL-ITIFM-DYPDIDTETA----ILRAK------------------------------T--DVAEDSAATIVR  210 (262)
T ss_pred             ccHHHHhhc-EEEEC-CCCCHHHHHH----HHHHh------------------------------h--CCCHHHHHHHHH
Confidence            689999998 44444 4555443322    23321                              1  246677788888


Q ss_pred             HHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         158 RYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       158 ~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      .+..+|....       ...+++|+...+.|   +.+.+.++..|+++|+....
T Consensus       211 ~~~~~R~~~~-------~~~~~~r~~i~~~~---~~~~~~~~~~~~~~~~~~~~  254 (262)
T TIGR02640       211 LVREFRASGD-------EITSGLRASLMIAE---VATQQDIPVDVDDEDFVDLC  254 (262)
T ss_pred             HHHHHHhhCC-------ccCCcHHHHHHHHH---HHHHcCCCCCCCcHHHHHHH
Confidence            8888883221       24567887655555   45555779999999998764

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

>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI

Probab=99.37  E-value=1e-11  Score=86.34  Aligned_cols=92  Identities=20%  Similarity=0.315  Sum_probs=79.1

Q ss_pred             cccHHHHHHHHHHHHhhcccCC-cCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccc
Q psy7187          99 TRDITLAKHIMKVHMTAGQEID-VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIP  177 (214)
Q Consensus        99 ~~d~~ia~~il~~~~~~~~~~~-~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~  177 (214)
                      +++..|.++|...+..+..+.. ...|+.++...+++|+         .+++++..++..++..              ..
T Consensus         3 esS~~ir~rV~~Ar~~Q~~R~~~~~~Na~l~~~~l~~~~---------~l~~~~~~~l~~~~~~--------------~~   59 (96)
T PF13335_consen    3 ESSAEIRERVEAARERQRERYGGIKCNAQLPGEELRKYC---------PLSSEAKKLLEQAAEK--------------LN   59 (96)
T ss_pred             CCHHHHHHHHHHHHHHHHHHcCCCCccccCCHHHHHhHc---------CCCHHHHHHHHHHHHH--------------cC
Confidence            4567889999998877766552 2578899999999983         4899999999998864              57


Q ss_pred             cCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       178 ~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +|.|+...++|+|+|+|+|++++.|+.+||.+|+.+
T Consensus        60 lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~y   95 (96)
T PF13335_consen   60 LSARGYHRILRVARTIADLEGSERITREHIAEALSY   95 (96)
T ss_pred             cCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhC
Confidence            899999999999999999999999999999999875

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.31  E-value=3.5e-11  Score=107.78  Aligned_cols=149  Identities=18%  Similarity=0.192  Sum_probs=107.8

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecce---------------EEEEeCceEEEEeecCCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGI---------------TTTLNSRCSVLAAANSVFGR   66 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~---------------~~~lpa~~~viaa~Np~~g~   66 (214)
                      ++|.+..||||++||||+++|++..++.|+.+||++.+.+..+..               ...+|++|.+|+|++.... 
T Consensus       167 ~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~-  245 (531)
T TIGR02902       167 KPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPE-  245 (531)
T ss_pred             cCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcc-
Confidence            478899999999999999999999999999999999988753211               2347999999988765422 


Q ss_pred             CCCCcccccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCC
Q psy7187          67 WDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPR  146 (214)
Q Consensus        67 ~~~~~~~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~  146 (214)
                                .+++++.+|+.- +.+.... .+.-..++++.                              ++. ....
T Consensus       246 ----------~L~paLrsR~~~-I~f~pL~-~eei~~Il~~~------------------------------a~k-~~i~  282 (531)
T TIGR02902       246 ----------EIPPALRSRCVE-IFFRPLL-DEEIKEIAKNA------------------------------AEK-IGIN  282 (531)
T ss_pred             ----------cCChHHhhhhhe-eeCCCCC-HHHHHHHHHHH------------------------------HHH-cCCC
Confidence                      288999999843 3333222 11111221111                              111 2346


Q ss_pred             CCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         147 LTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       147 ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +++++.+.|.+|..                  +.|.+..+++.|-.+|..+.+..|+.+|+..++.
T Consensus       283 is~~al~~I~~y~~------------------n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~  330 (531)
T TIGR02902       283 LEKHALELIVKYAS------------------NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAE  330 (531)
T ss_pred             cCHHHHHHHHHhhh------------------hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhC
Confidence            88898887765321                  3588999999999899888899999999999874

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

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=1.7e-11  Score=110.82  Aligned_cols=170  Identities=22%  Similarity=0.250  Sum_probs=117.7

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE-----ecce---EEEEeCceEEEEeecCCCCCCCCCcc
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA-----KAGI---TTTLNSRCSVLAAANSVFGRWDDTKG   72 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~-----~~g~---~~~lpa~~~viaa~Np~~g~~~~~~~   72 (214)
                      ++||++..||||||||||+..+....+..++.+|++++-.+.     ..|.   .-.+|++|.++++.|++.        
T Consensus       216 i~pGaVHkAngGVLiIdei~lL~~~~~w~~LKa~~~k~~~~~~~~~~s~~~~v~~e~vP~d~klI~~Gn~~~--------  287 (647)
T COG1067         216 VKPGAVHKANGGVLIIDEIGLLAQPLQWKLLKALLDKEQPIWGSSEPSSGAPVRPESVPLDLKLILAGNRED--------  287 (647)
T ss_pred             ccCcccccccCcEEEEEhhhhhCcHHHHHHHHHHHhccccccCcCccccCcccCCCCcccceEEEeeCCHHH--------
Confidence            579999999999999999999998889999999997644332     1122   334899999999999971        


Q ss_pred             cccccCCCCCCCcccE---EEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHh-HhccCCCCC
Q psy7187          73 EQNIDFMPTILSRFDM---IFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYC-RMRCGPRLT  148 (214)
Q Consensus        73 ~~~~~l~~~lldRFDL---~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~a-r~~~~p~ls  148 (214)
                        -..+..++-||.++   ...+.+... ..++.-.+                        ....|.... +..=.|.++
T Consensus       288 --l~~l~~~~~~r~~g~~y~ae~~~~m~-~~~~nr~k------------------------~~~~~~q~v~~d~~ip~~~  340 (647)
T COG1067         288 --LEDLHEPDRSRIEGFGYEAEFEDTMP-ITDANRSK------------------------LVQFYVQELARDGNIPHLD  340 (647)
T ss_pred             --HHhhcccCHHHHhhcceEEEEcCCCC-CChHHHHH------------------------HHHHHHHHHHhcCCCCCCC
Confidence              11255555555554   355554433 22221111                        111122212 221248899


Q ss_pred             HHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         149 HEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       149 ~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ..|.+.|.++..  |+.+.     ...+++.+|-+-.|+|.|--+|..++++.++.+||.+|+.
T Consensus       341 ~~Av~~li~~a~--R~Ag~-----~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~  397 (647)
T COG1067         341 KDAVEELIREAA--RRAGD-----QNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQ  397 (647)
T ss_pred             HHHHHHHHHHHH--Hhccc-----cceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHHHH
Confidence            999888877653  33322     3357899999999999999999999999999999999975

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.31  E-value=2.2e-11  Score=101.77  Aligned_cols=155  Identities=15%  Similarity=0.202  Sum_probs=97.2

Q ss_pred             Ccceeec--cCCceEeeccCCCCCHHHHHHHHHhhh-cCeEEEEecceEEEEeCceEEEEeecCCC-CCCCCCcc-cccc
Q psy7187           2 EGGAMVL--ADGGVVCIDEFDKMREDDRVAIHEAME-QQTISIAKAGITTTLNSRCSVLAAANSVF-GRWDDTKG-EQNI   76 (214)
Q Consensus         2 ~~G~l~l--a~~Gv~~iDE~~~~~~~~~~~L~e~me-~~~i~i~~~g~~~~lpa~~~viaa~Np~~-g~~~~~~~-~~~~   76 (214)
                      +.|.|..  -+|+++++||+|..+++++..|+..|| .+.++|...+....-...|.|+||+||.. |  |..-. ....
T Consensus       124 ~~GpL~~A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~G--d~~G~y~Gt~  201 (327)
T TIGR01650       124 RDGILPWALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLG--DTTGLYHGTQ  201 (327)
T ss_pred             ecCcchhHHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcC--CCCcceeeee
Confidence            3566654  467889999999999999999999999 57999965554444333799999999974 2  11101 3456


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLK  156 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~  156 (214)
                      .++.+++||| +++...+.++.+....|    +......       .... .                   +++..+++.
T Consensus       202 ~l~~A~lDRF-~i~~~~~Yp~~e~E~~I----l~~~~~~-------~~~~-~-------------------~~~i~~~mV  249 (327)
T TIGR01650       202 QINQAQMDRW-SIVTTLNYLEHDNEAAI----VLAKAKG-------FDDT-E-------------------GKDIINAMV  249 (327)
T ss_pred             cCCHHHHhhe-eeEeeCCCCCHHHHHHH----HHhhccC-------CCcc-c-------------------hHHHHHHHH
Confidence            7999999999 55555566665544432    3221100       0000 1                   223344444


Q ss_pred             HHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHH
Q psy7187         157 NRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESM  193 (214)
Q Consensus       157 ~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~  193 (214)
                      +.....|....   ......++|+|++.++.+.+...
T Consensus       250 ~la~~tR~~~~---~~~i~~~~SpR~li~w~~~~~~f  283 (327)
T TIGR01650       250 RVADMTRNAFI---NGDISTVMSPRTVITWAENAEIF  283 (327)
T ss_pred             HHHHHHHhhhc---cCCccccccHHHHHHHHHHHHhh
Confidence            44444443111   11235789999999988887654

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

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

Probab=99.12  E-value=9.6e-10  Score=87.09  Aligned_cols=73  Identities=22%  Similarity=0.461  Sum_probs=52.7

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE-ecc---eEEEEe-CceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA-KAG---ITTTLN-SRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~-~~g---~~~~lp-a~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +..+-|+||||+.+|++.+++.|+.+||++++.|- ..|   .+.+++ .+|++|+|++-. |.           |+.||
T Consensus        99 l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~-g~-----------ls~pL  166 (233)
T PF05496_consen   99 LKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRA-GL-----------LSSPL  166 (233)
T ss_dssp             --TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSG-CC-----------TSHCC
T ss_pred             cCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccc-cc-----------cchhH
Confidence            35678999999999999999999999999999663 333   234433 359999998764 44           99999


Q ss_pred             CCcccEEEEe
Q psy7187          83 LSRFDMIFII   92 (214)
Q Consensus        83 ldRFDL~~~~   92 (214)
                      .|||.++.-+
T Consensus       167 rdRFgi~~~l  176 (233)
T PF05496_consen  167 RDRFGIVLRL  176 (233)
T ss_dssp             CTTSSEEEE-
T ss_pred             Hhhcceecch
Confidence            9999988765

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.

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

Probab=98.90  E-value=7.7e-10  Score=81.96  Aligned_cols=77  Identities=21%  Similarity=0.431  Sum_probs=56.9

Q ss_pred             Ccceeecc--CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeC------ceEEEEeecCCCCCCCCCccc
Q psy7187           2 EGGAMVLA--DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNS------RCSVLAAANSVFGRWDDTKGE   73 (214)
Q Consensus         2 ~~G~l~la--~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa------~~~viaa~Np~~g~~~~~~~~   73 (214)
                      ++|.++.|  +++|++|||+|+.++++++.|+.+++++.+.+...+.....+.      .|.+|||+||.. .       
T Consensus        55 ~~~~l~~a~~~~~il~lDEin~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~-~-------  126 (139)
T PF07728_consen   55 KDGPLVRAMRKGGILVLDEINRAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRD-K-------  126 (139)
T ss_dssp             EE-CCCTTHHEEEEEEESSCGG--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST---------
T ss_pred             ccccccccccceeEEEECCcccCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCC-C-------
Confidence            35667755  8999999999999999999999999999999876665555554      499999999975 1       


Q ss_pred             ccccCCCCCCCcc
Q psy7187          74 QNIDFMPTILSRF   86 (214)
Q Consensus        74 ~~~~l~~~lldRF   86 (214)
                      ...+++.+|+|||
T Consensus       127 ~~~~l~~al~~Rf  139 (139)
T PF07728_consen  127 GRKELSPALLDRF  139 (139)
T ss_dssp             -TTTTCHHHHTT-
T ss_pred             CcCcCCHHHHhhC
Confidence            2235999999998

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.79  E-value=8.9e-08  Score=81.08  Aligned_cols=142  Identities=19%  Similarity=0.229  Sum_probs=88.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE--ecc----eEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA--KAG----ITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~--~~g----~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      .+++|+||||++.++....+.|+.+|+...+.+.  .+.    ....+| .+.+|+++|+...            ++++|
T Consensus       101 ~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~-~~~li~at~~~~~------------l~~~L  167 (328)
T PRK00080        101 EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLP-PFTLIGATTRAGL------------LTSPL  167 (328)
T ss_pred             ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCC-CceEEeecCCccc------------CCHHH
Confidence            5689999999999999999999999998766542  211    122345 4888888888532            78899


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~  162 (214)
                      .+||++++.+... +.+   .+ ..++......                           ....+++++.++|.+..   
T Consensus       168 ~sRf~~~~~l~~~-~~~---e~-~~il~~~~~~---------------------------~~~~~~~~~~~~ia~~~---  212 (328)
T PRK00080        168 RDRFGIVQRLEFY-TVE---EL-EKIVKRSARI---------------------------LGVEIDEEGALEIARRS---  212 (328)
T ss_pred             HHhcCeeeecCCC-CHH---HH-HHHHHHHHHH---------------------------cCCCcCHHHHHHHHHHc---
Confidence            9999877666432 222   11 1222221111                           12346666666665422   


Q ss_pred             hcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         163 RNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       163 r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                    .=++|....+++-.+..|.......|+.+++..++.
T Consensus       213 --------------~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~  248 (328)
T PRK00080        213 --------------RGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALD  248 (328)
T ss_pred             --------------CCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence                          013466666666666666665556777777777654

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.70  E-value=2.1e-07  Score=81.33  Aligned_cols=60  Identities=20%  Similarity=0.367  Sum_probs=55.0

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +.|-+-.||||.+|+|||..||-+.+..|+.++++|++.  |-|.+.+.+.+.-||||+|-.
T Consensus       227 r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~--rvG~~~~i~vdvRiIaaT~~d  286 (464)
T COG2204         227 RIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFE--RVGGNKPIKVDVRIIAATNRD  286 (464)
T ss_pred             cCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeE--ecCCCcccceeeEEEeecCcC
Confidence            368999999999999999999999999999999999975  478888889999999999986

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

Probab=98.64  E-value=1.3e-06  Score=71.30  Aligned_cols=144  Identities=19%  Similarity=0.247  Sum_probs=101.6

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE--ecc--eEEE--EeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA--KAG--ITTT--LNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~--~~g--~~~~--lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      +..|-|+|||||..+++.+-+.|+-+||.-.+-|.  ++.  .+..  +| .|++|+|+-- .|.           |+.|
T Consensus       101 Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLp-pFTLIGATTr-~G~-----------lt~P  167 (332)
T COG2255         101 LEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLP-PFTLIGATTR-AGM-----------LTNP  167 (332)
T ss_pred             CCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCC-CeeEeeeccc-ccc-----------ccch
Confidence            55688999999999999999999999999887664  221  2333  44 5999998855 354           9999


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVL  161 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~  161 (214)
                      |.|||.++..+.-.    +.++++.-|.+.                           |+ .+...+++++...|.+.   
T Consensus       168 LrdRFGi~~rlefY----~~~eL~~Iv~r~---------------------------a~-~l~i~i~~~~a~eIA~r---  212 (332)
T COG2255         168 LRDRFGIIQRLEFY----TVEELEEIVKRS---------------------------AK-ILGIEIDEEAALEIARR---  212 (332)
T ss_pred             hHHhcCCeeeeecC----CHHHHHHHHHHH---------------------------HH-HhCCCCChHHHHHHHHh---
Confidence            99999998877432    333443333222                           11 13456777777776432   


Q ss_pred             HhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         162 MRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       162 ~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                        .            +=|||--..|+|=-+-.|..++...|+.+=+..|+..
T Consensus       213 --S------------RGTPRIAnRLLrRVRDfa~V~~~~~I~~~ia~~aL~~  250 (332)
T COG2255         213 --S------------RGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALKM  250 (332)
T ss_pred             --c------------cCCcHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence              1            1168888888888888888888888888777777643

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.62  E-value=8.4e-07  Score=74.20  Aligned_cols=142  Identities=20%  Similarity=0.266  Sum_probs=86.3

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE-ecc-----eEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA-KAG-----ITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~-~~g-----~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      ..++|+||||++.++++..+.|+..|+...+.+- .+|     ....+|. +.+++++|.. +           .++.++
T Consensus        80 ~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~-~~li~~t~~~-~-----------~l~~~l  146 (305)
T TIGR00635        80 EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPP-FTLVGATTRA-G-----------MLTSPL  146 (305)
T ss_pred             ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCC-eEEEEecCCc-c-----------ccCHHH
Confidence            4578999999999999999999999998665432 111     1123343 6677776654 2           278899


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~  162 (214)
                      .|||++++.+... +.+.   +. .++.....                          . ....+++++.+.|.+...  
T Consensus       147 ~sR~~~~~~l~~l-~~~e---~~-~il~~~~~--------------------------~-~~~~~~~~al~~ia~~~~--  192 (305)
T TIGR00635       147 RDRFGIILRLEFY-TVEE---LA-EIVSRSAG--------------------------L-LNVEIEPEAALEIARRSR--  192 (305)
T ss_pred             HhhcceEEEeCCC-CHHH---HH-HHHHHHHH--------------------------H-hCCCcCHHHHHHHHHHhC--
Confidence            9999876665433 2221   11 11211111                          0 133567777666654320  


Q ss_pred             hcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         163 RNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       163 r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                   .  .+|....+++.+...|.......|+.+++..++.
T Consensus       193 -------------G--~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~  227 (305)
T TIGR00635       193 -------------G--TPRIANRLLRRVRDFAQVRGQKIINRDIALKALE  227 (305)
T ss_pred             -------------C--CcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence                         0  2465666666666666666666788888877764

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.62  E-value=5.8e-07  Score=82.09  Aligned_cols=77  Identities=18%  Similarity=0.275  Sum_probs=58.7

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecce---------------EEEEeCceEEEEeecCCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGI---------------TTTLNSRCSVLAAANSVFGRW   67 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~---------------~~~lpa~~~viaa~Np~~g~~   67 (214)
                      +|.+..++||++||||++.|+...+..|+..|+++.+.+..+..               ...-|+.+.++++++....  
T Consensus       258 ~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~--  335 (615)
T TIGR02903       258 TGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPE--  335 (615)
T ss_pred             cCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEecccccc--
Confidence            57778899999999999999999999999999999988764311               1123567788877654322  


Q ss_pred             CCCcccccccCCCCCCCcccEEE
Q psy7187          68 DDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        68 ~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                               .++++|.+||..+.
T Consensus       336 ---------~l~~aLrSR~~~i~  349 (615)
T TIGR02903       336 ---------EINPALRSRCAEVF  349 (615)
T ss_pred             ---------ccCHHHHhceeEEE
Confidence                     27789999997543

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

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.59  E-value=8.3e-08  Score=81.38  Aligned_cols=79  Identities=18%  Similarity=0.137  Sum_probs=65.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC-CCCCCCcccccccCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF-GRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~-g~~~~~~~~~~~~l~~~   81 (214)
                      .|.|..||+||+.++|+.+.+.+.+..|+.++++|.+.+.  |....+|.+..|||++||.+ ..+      .+.+...+
T Consensus       229 ~G~l~~aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~--~~~~~~~~d~liia~sNe~e~~~~------~~~k~~ea  300 (361)
T smart00763      229 DGALNRANRGILEFVEMFKADIKFLHPLLTATQEGNIKGT--GGFAMIPIDGLIIAHSNESEWQRF------KSNKKNEA  300 (361)
T ss_pred             cCccccccCceEEEeehhcCCHHHHHHHhhhhhcceEecC--CcccccccceEEEEeCCHHHHhhh------hccccchh
Confidence            4999999999999999999999999999999999999984  44457889999999999972 221      12234699


Q ss_pred             CCCcccEE
Q psy7187          82 ILSRFDMI   89 (214)
Q Consensus        82 lldRFDL~   89 (214)
                      |+|||..+
T Consensus       301 f~dR~~~i  308 (361)
T smart00763      301 LLDRIIKV  308 (361)
T ss_pred             hhhceEEE
Confidence            99999733

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

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.59  E-value=2.2e-07  Score=78.74  Aligned_cols=104  Identities=19%  Similarity=0.288  Sum_probs=71.7

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      ++|.+..|+||++||||++.|+.+.+..|+.+++++.+.  +.|.....+.++-||+++|..-...     .....+...
T Consensus        85 ~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~--~~g~~~~~~~~~RiI~at~~~l~~~-----~~~g~fr~d  157 (329)
T TIGR02974        85 HQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFE--RVGGSQTLQVDVRLVCATNADLPAL-----AAEGRFRAD  157 (329)
T ss_pred             cCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEE--ecCCCceeccceEEEEechhhHHHH-----hhcCchHHH
Confidence            367799999999999999999999999999999999864  4566677889999999999851100     112236667


Q ss_pred             CCCcccE-EEEecCCCCcccc-HHHHHHHHHHH
Q psy7187          82 ILSRFDM-IFIIKDEHDETRD-ITLAKHIMKVH  112 (214)
Q Consensus        82 lldRFDL-~~~~~~~~~~~~d-~~ia~~il~~~  112 (214)
                      |+.||.. .+.++.-.+...| ..++++.+...
T Consensus       158 L~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~  190 (329)
T TIGR02974       158 LLDRLAFDVITLPPLRERQEDIMLLAEHFAIRM  190 (329)
T ss_pred             HHHHhcchhcCCCchhhhhhhHHHHHHHHHHHH
Confidence            7777753 3333332232222 35555655543

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.58  E-value=2.9e-07  Score=79.07  Aligned_cols=60  Identities=15%  Similarity=0.295  Sum_probs=54.1

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      ++|.+-.||||.+|+||+..||+..+..|+.+||+|++.-  -|.....|.++-+++|+|-.
T Consensus       165 k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~r--vG~~~~~~~dVRli~AT~~~  224 (403)
T COG1221         165 KAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRR--VGGSQPRPVDVRLICATTED  224 (403)
T ss_pred             cCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEe--cCCCCCcCCCceeeeccccC
Confidence            5899999999999999999999999999999999999862  45577889999999999875

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.54  E-value=1.1e-06  Score=76.57  Aligned_cols=60  Identities=25%  Similarity=0.401  Sum_probs=55.7

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      ++|-+-+||||-+|+|||.+||-..+..|+-++++|.|  +|-|...+++.+.-||||+|-.
T Consensus       309 r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEi--eRvG~~r~ikVDVRiIAATNRD  368 (550)
T COG3604         309 RRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEI--ERVGGDRTIKVDVRVIAATNRD  368 (550)
T ss_pred             cCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcce--eecCCCceeEEEEEEEeccchh
Confidence            47888999999999999999999999999999999995  5689899999999999999986

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.52  E-value=1.3e-06  Score=76.76  Aligned_cols=143  Identities=16%  Similarity=0.214  Sum_probs=84.7

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+||++||||++.++...+..|++.++++.++  +-|.....|+++-+|+++++.-...     .....+...|
T Consensus       226 ~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~--~~~~~~~~~~~~rii~~~~~~l~~~-----~~~~~~~~~L  298 (445)
T TIGR02915       226 LGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIE--RLGGREEIPVDVRIVCATNQDLKRM-----IAEGTFREDL  298 (445)
T ss_pred             CCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEE--eCCCCceeeeceEEEEecCCCHHHH-----HHcCCccHHH
Confidence            67788999999999999999999999999999999864  3555667889999999998851000     0111245555


Q ss_pred             CCcccEE-EEecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMI-FIIKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~-~~~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.|+.-. +.++.-.+...| ..++++.++........    ....++.+.++....|    -+|-=-.|..+.+.+...
T Consensus       299 ~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~----~~~~~~~~a~~~L~~~----~wpgNvreL~~~i~~a~~  370 (445)
T TIGR02915       299 FYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKR----KTKGFTDDALRALEAH----AWPGNVRELENKVKRAVI  370 (445)
T ss_pred             HHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCC----CCCCCCHHHHHHHHhC----CCCChHHHHHHHHHHHHH
Confidence            5555422 222222222222 35666666654332111    1123555555544332    123222355566655543

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.52  E-value=9.2e-07  Score=74.88  Aligned_cols=144  Identities=15%  Similarity=0.168  Sum_probs=90.2

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+||.+||||++.++...+..|.+.+++|.+.  +.|.....+.++-||++++..-...     .....+...|
T Consensus        93 ~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~--~~g~~~~~~~~~RiI~~s~~~l~~l-----~~~g~f~~dL  165 (326)
T PRK11608         93 PGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELE--RVGGSQPLQVNVRLVCATNADLPAM-----VAEGKFRADL  165 (326)
T ss_pred             CCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEE--eCCCCceeeccEEEEEeCchhHHHH-----HHcCCchHHH
Confidence            67789999999999999999999999999999999855  4566677888999999998851000     1112366778


Q ss_pred             CCccc-EEEEecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFD-MIFIIKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFD-L~~~~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.||. +.+.++.-.+...| ..++++.+.........   .....++.+.++....|    -+|-=-.|.++.+.+.+.
T Consensus       166 ~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~---~~~~~~s~~al~~L~~y----~WPGNvrEL~~vl~~a~~  238 (326)
T PRK11608        166 LDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGL---PLFPGFTERARETLLNY----RWPGNIRELKNVVERSVY  238 (326)
T ss_pred             HHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCC---CCCCCCCHHHHHHHHhC----CCCcHHHHHHHHHHHHHH
Confidence            88884 34445443333333 35666666554322111   00123566655554432    234323366666666554

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.51  E-value=1.6e-06  Score=78.13  Aligned_cols=102  Identities=20%  Similarity=0.331  Sum_probs=68.3

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+||++||||++.++.+.+..|++.++++.+.-  .|.....+.++-+|+++|..-...     .....+...|
T Consensus       283 ~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~--~~~~~~~~~~~riI~~s~~~l~~~-----~~~~~f~~~L  355 (534)
T TIGR01817       283 KGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFER--VGGNRTLKVDVRLVAATNRDLEEA-----VAKGEFRADL  355 (534)
T ss_pred             CCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEE--CCCCceEeecEEEEEeCCCCHHHH-----HHcCCCCHHH
Confidence            566889999999999999999999999999999998754  454556788899999988751100     1122356667


Q ss_pred             CCcccEE-EEecCCCCccccH-HHHHHHHHH
Q psy7187          83 LSRFDMI-FIIKDEHDETRDI-TLAKHIMKV  111 (214)
Q Consensus        83 ldRFDL~-~~~~~~~~~~~d~-~ia~~il~~  111 (214)
                      +.|+..+ +.++.-.+...|. .|+++.+..
T Consensus       356 ~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~  386 (534)
T TIGR01817       356 YYRINVVPIFLPPLRERREDIPLLAEAFLEK  386 (534)
T ss_pred             HHHhcCCeeeCCCcccccccHHHHHHHHHHH
Confidence            7777533 3333222332332 555555543

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

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.48  E-value=3e-06  Score=74.69  Aligned_cols=143  Identities=17%  Similarity=0.247  Sum_probs=86.1

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+||++||||++.++...+..|+++++++.+.  +.|.....+.++-+|+|+|..-...     .....+...+
T Consensus       230 ~g~~~~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~--~~~~~~~~~~~~rii~~t~~~l~~~-----~~~g~~~~~l  302 (457)
T PRK11361        230 QGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFE--RIGGHQTIKVDIRIIAATNRDLQAM-----VKEGTFREDL  302 (457)
T ss_pred             CCceEECCCCEEEEechhhCCHHHHHHHHHHHhcCcEE--eCCCCceeeeceEEEEeCCCCHHHH-----HHcCCchHHH
Confidence            68899999999999999999999999999999998765  4566677888999999998751000     0112255566


Q ss_pred             CCcccEEEE-ecCCCCccccH-HHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFI-IKDEHDETRDI-TLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~~~-~~~~~~~~~d~-~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.|+.-+.+ ++.-.+...|. .++.+.+........    .....++.+.++....|    -+|-=-.|..+.+.+.+.
T Consensus       303 ~~~l~~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~----~~~~~~~~~a~~~L~~~----~wpgNv~eL~~~~~~~~~  374 (457)
T PRK11361        303 FYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQ----RDIIDIDPMAMSLLTAW----SWPGNIRELSNVIERAVV  374 (457)
T ss_pred             HHHhccceecCCChhhchhhHHHHHHHHHHHHHHHcC----CCCCCcCHHHHHHHHcC----CCCCcHHHHHHHHHHHHH
Confidence            666643222 22222222232 456666655432211    11123555554444322    133223366666666554

>PF13654 AAA_32: AAA domain; PDB: 3K1J_B

Probab=98.46  E-value=2.7e-07  Score=82.12  Aligned_cols=166  Identities=15%  Similarity=0.222  Sum_probs=94.3

Q ss_pred             CCcceeeccCCceEeeccCCCCCH-HHHHHHHHhhhcCeEEEEecce----------EEEEeCceEEEEeecCC-CCCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMRE-DDRVAIHEAMEQQTISIAKAGI----------TTTLNSRCSVLAAANSV-FGRWD   68 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~-~~~~~L~e~me~~~i~i~~~g~----------~~~lpa~~~viaa~Np~-~g~~~   68 (214)
                      |+||+|..||||+|+||--+.+.. ..-..|..+|.+|++.+...+.          .-.+|.++-||-..++. ...+ 
T Consensus       323 I~~GaLhkANGGyLIL~a~~LL~~p~~W~~LKr~L~~~~i~ie~~~~~~~~~~~~l~PepIpl~vKVILiG~~~~y~~L-  401 (509)
T PF13654_consen  323 IKPGALHKANGGYLILDAEDLLANPYAWERLKRALRTGEIEIESPEEYGLSSTVSLEPEPIPLDVKVILIGDRELYYLL-  401 (509)
T ss_dssp             EE--HHHHTTTSEEEETTGGGS-HHH-HHHHHHHHHHSEE--B-S---TTSGGGG-B-S-EE---EEEEEE-TTHHHHS-
T ss_pred             EcCceEEecCCeEEEEEHHHhhhChHHHHHHHHHHHcCceeeccccccccCCCCCCCCCCcceEEEEEEEcCHHHHHHH-
Confidence            479999999999999999999874 5678999999999999976531          11244444444444442 0000 


Q ss_pred             CCcccccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhcc----C
Q psy7187          69 DTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRC----G  144 (214)
Q Consensus        69 ~~~~~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~----~  144 (214)
                             ....+.+..-|.+..-+.+                             .-..+.+.+..|+.|.+..+    .
T Consensus       402 -------~~~D~dF~~lFkv~aef~~-----------------------------~~~~~~e~~~~~~~~i~~~~~~~~L  445 (509)
T PF13654_consen  402 -------YEYDPDFYKLFKVKAEFDS-----------------------------EMPRTEENIRQYARFIASICQKEGL  445 (509)
T ss_dssp             --------HHHHHHHHHHSEEEE--S-----------------------------EEE--HHHHHHHHHHHHHHHHHHSS
T ss_pred             -------HHhCHHHHhCCCEEEEccc-----------------------------cCCCCHHHHHHHHHHHHHHHHhCCC
Confidence                   0011111112222221111                             11224455666665555433    3


Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      |.++.+|...+.++.+.+  ..       ..+.+....+..|++-|-.+|+..+.+.|+.+||..|+.
T Consensus       446 ~~~~~~Av~~li~~~~R~--~q-------~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~  504 (509)
T PF13654_consen  446 PPFDRSAVARLIEYSARL--DQ-------DKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIE  504 (509)
T ss_dssp             --BBHHHHHHHHHHHHHC--C--------SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH--hC-------CEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence            679999999999887653  11       136667778999999999999999999999999999985

>PHA02244 ATPase-like protein

Probab=98.46  E-value=5.3e-07  Score=76.72  Aligned_cols=81  Identities=21%  Similarity=0.246  Sum_probs=62.9

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      .++||+|+|||++.++++++..|+.+++++.+.+  .|..+..+.+|.+|||+||....|+..- .....++.+++||| 
T Consensus       178 ~~~GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l--~g~~i~~h~~FRlIATsN~~~~G~~~~y-~G~k~L~~AllDRF-  253 (383)
T PHA02244        178 FKKGGLFFIDEIDASIPEALIIINSAIANKFFDF--ADERVTAHEDFRVISAGNTLGKGADHIY-VARNKIDGATLDRF-  253 (383)
T ss_pred             hhcCCEEEEeCcCcCCHHHHHHHHHHhccCeEEe--cCcEEecCCCEEEEEeeCCCccCccccc-CCCcccCHHHHhhc-
Confidence            5789999999999999999999999999997665  6777777789999999999732221100 12235899999999 


Q ss_pred             EEEEe
Q psy7187          88 MIFII   92 (214)
Q Consensus        88 L~~~~   92 (214)
                      +.+.+
T Consensus       254 v~I~~  258 (383)
T PHA02244        254 APIEF  258 (383)
T ss_pred             EEeeC
Confidence            55554

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.44  E-value=2.5e-06  Score=76.43  Aligned_cols=143  Identities=17%  Similarity=0.223  Sum_probs=86.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+-.|+||.+||||++.++.+.+..|+.+++++.+  .+-|...+.+.++-||+++|..-...     .....+...|
T Consensus       274 ~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~--~~~g~~~~~~~~~RiI~~t~~~l~~~-----~~~~~f~~dL  346 (509)
T PRK05022        274 SGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEI--QRVGSDRSLRVDVRVIAATNRDLREE-----VRAGRFRADL  346 (509)
T ss_pred             CcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCE--eeCCCCcceecceEEEEecCCCHHHH-----HHcCCccHHH
Confidence            5678899999999999999999999999999999986  34566667888999999998751000     1112355666


Q ss_pred             CCcccEE-EEecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMI-FIIKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~-~~~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.|+..+ +.++.-.+...| ..++.|.++.......    .....++.+.++....|    -+|-==.|..+.+.+...
T Consensus       347 ~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~----~~~~~~s~~a~~~L~~y----~WPGNvrEL~~~i~ra~~  418 (509)
T PRK05022        347 YHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLG----LRSLRLSPAAQAALLAY----DWPGNVRELEHVISRAAL  418 (509)
T ss_pred             HhcccccEeeCCCchhchhhHHHHHHHHHHHHHHHcC----CCCCCCCHHHHHHHHhC----CCCCcHHHHHHHHHHHHH
Confidence            6666533 223322233233 3566676665432211    01123555555444332    133222355666655554

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

Probab=98.43  E-value=1.8e-06  Score=72.54  Aligned_cols=137  Identities=20%  Similarity=0.183  Sum_probs=96.2

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC----CCCCCCCcccccccCCCCCCCcc
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV----FGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~----~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      -||+||||...++-+.-+.|..+||+--              -..|+.|+|--    .|.   + -.....+|.-||||.
T Consensus       292 pGVLFIDEvHmLDIE~FsFlnrAlEse~--------------aPIii~AtNRG~~kiRGT---d-~~sPhGIP~DlLDRl  353 (450)
T COG1224         292 PGVLFIDEVHMLDIECFSFLNRALESEL--------------APIIILATNRGMTKIRGT---D-IESPHGIPLDLLDRL  353 (450)
T ss_pred             cceEEEechhhhhHHHHHHHHHHhhccc--------------CcEEEEEcCCceeeeccc---C-CcCCCCCCHhhhhhe
Confidence            3899999999999999999999999632              23455566653    121   0 022345899999997


Q ss_pred             cEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCC
Q psy7187          87 DMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGS  166 (214)
Q Consensus        87 DL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~  166 (214)
                       |++.+..... +   ++. -|+.-+.                          +. -...++++|.++|...=       
T Consensus       354 -lII~t~py~~-~---Eir-eIi~iRa--------------------------~e-e~i~l~~~Ale~L~~ig-------  393 (450)
T COG1224         354 -LIISTRPYSR-E---EIR-EIIRIRA--------------------------KE-EDIELSDDALEYLTDIG-------  393 (450)
T ss_pred             -eEEecCCCCH-H---HHH-HHHHHhh--------------------------hh-hccccCHHHHHHHHhhc-------
Confidence             6666544322 2   221 1222111                          11 13468999999987642       


Q ss_pred             CcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         167 KEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       167 ~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                               ...|.|.-..|+--|.-+|+.+++..|..+||++|-+||
T Consensus       394 ---------~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~lF  432 (450)
T COG1224         394 ---------EETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELF  432 (450)
T ss_pred             ---------hhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHHH
Confidence                     234788888999999999999999999999999999988

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.42  E-value=5.4e-06  Score=74.34  Aligned_cols=104  Identities=17%  Similarity=0.252  Sum_probs=70.9

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      .+|.+-+||||.+||||++.|+...+..|+.+++++.+.  +-|.....|.++-+|+++|..-...     .....+...
T Consensus       299 ~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~--r~g~~~~~~~dvRiIaat~~~l~~~-----v~~g~fr~d  371 (526)
T TIGR02329       299 RTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVV--RVGGTEPVPVDVRVVAATHCALTTA-----VQQGRFRRD  371 (526)
T ss_pred             cccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEE--ecCCCceeeecceEEeccCCCHHHH-----hhhcchhHH
Confidence            367788899999999999999999999999999999875  3566667888999999998752100     111235555


Q ss_pred             CCCccc-EEEEecCCCCcccc-HHHHHHHHHHH
Q psy7187          82 ILSRFD-MIFIIKDEHDETRD-ITLAKHIMKVH  112 (214)
Q Consensus        82 lldRFD-L~~~~~~~~~~~~d-~~ia~~il~~~  112 (214)
                      |+.|+. +.+.++.-.+...| ..++.+.+...
T Consensus       372 L~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~  404 (526)
T TIGR02329       372 LFYRLSILRIALPPLRERPGDILPLAAEYLVQA  404 (526)
T ss_pred             HHHhcCCcEEeCCCchhchhHHHHHHHHHHHHH
Confidence            666664 33434433333233 35566666654

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.42  E-value=3.5e-06  Score=74.26  Aligned_cols=60  Identities=23%  Similarity=0.401  Sum_probs=55.5

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +||.+-+||||-+|+|||+.||-..+..|+.+++++++-  |-|.+...|.+.-||||+|-.
T Consensus       332 K~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~--rvG~t~~~~vDVRIIAATN~n  391 (560)
T COG3829         332 KPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIE--RVGGTKPIPVDVRIIAATNRN  391 (560)
T ss_pred             CCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEE--ecCCCCceeeEEEEEeccCcC
Confidence            589999999999999999999999999999999998864  478888899999999999986

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.42  E-value=4.5e-06  Score=73.96  Aligned_cols=104  Identities=19%  Similarity=0.312  Sum_probs=70.8

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      .+|.+..|+||.+||||++.++...+..|+..++++.++-  .|.....+.++.+|+|++..-...     .....+...
T Consensus       224 ~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~--~~~~~~~~~~~rii~~~~~~l~~~-----~~~~~~~~~  296 (469)
T PRK10923        224 RQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYR--VGGYAPVKVDVRIIAATHQNLEQR-----VQEGKFRED  296 (469)
T ss_pred             CCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEe--CCCCCeEEeeEEEEEeCCCCHHHH-----HHcCCchHH
Confidence            3677889999999999999999999999999999998765  444445667899999998751000     112236677


Q ss_pred             CCCccc-EEEEecCCCCcccc-HHHHHHHHHHH
Q psy7187          82 ILSRFD-MIFIIKDEHDETRD-ITLAKHIMKVH  112 (214)
Q Consensus        82 lldRFD-L~~~~~~~~~~~~d-~~ia~~il~~~  112 (214)
                      |+.||. +.+.++.-.+...| ..++++.++..
T Consensus       297 L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~  329 (469)
T PRK10923        297 LFHRLNVIRVHLPPLRERREDIPRLARHFLQVA  329 (469)
T ss_pred             HHHHhcceeecCCCcccchhhHHHHHHHHHHHH
Confidence            888884 34434433333333 24555655543

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

Probab=98.40  E-value=9.9e-07  Score=76.76  Aligned_cols=63  Identities=22%  Similarity=0.278  Sum_probs=47.9

Q ss_pred             ceeeccCCceEeeccCCCCCHH--------------HHHHHHHhhhcCeEEEEecc-eEEEEeCceEEEEeecCC---CC
Q psy7187           4 GAMVLADGGVVCIDEFDKMRED--------------DRVAIHEAMEQQTISIAKAG-ITTTLNSRCSVLAAANSV---FG   65 (214)
Q Consensus         4 G~l~la~~Gv~~iDE~~~~~~~--------------~~~~L~e~me~~~i~i~~~g-~~~~lpa~~~viaa~Np~---~g   65 (214)
                      |.+..|.+||+||||+++++.+              ++++|++.||.+.+++.-.| ....+ .++.+|+|+|+.   .|
T Consensus       167 ~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~~~-~~~~~i~t~nilfi~~G  245 (412)
T PRK05342        167 YDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQ-QEFIQVDTTNILFICGG  245 (412)
T ss_pred             ccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCcCC-CCeEEeccCCceeeecc
Confidence            4455688999999999999764              88999999997777775333 33333 679999999994   35


Q ss_pred             CC
Q psy7187          66 RW   67 (214)
Q Consensus        66 ~~   67 (214)
                      .|
T Consensus       246 af  247 (412)
T PRK05342        246 AF  247 (412)
T ss_pred             cc
Confidence            54

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.38  E-value=5.3e-06  Score=72.78  Aligned_cols=59  Identities=24%  Similarity=0.406  Sum_probs=51.3

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +|.+..|+||++||||++.|+...+..|++.++++.++-  .|...+.+.++-+|+|++..
T Consensus       226 ~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~--~~~~~~~~~~~rii~~t~~~  284 (441)
T PRK10365        226 EGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQR--VGSNQTISVDVRLIAATHRD  284 (441)
T ss_pred             CCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEe--CCCCceeeeceEEEEeCCCC
Confidence            588999999999999999999999999999999999644  56666778888899888764

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.37  E-value=6.1e-06  Score=74.10  Aligned_cols=60  Identities=18%  Similarity=0.359  Sum_probs=53.6

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      .+|.+-.||||.+||||++.|+...+..|+.+++++++.  +-|.....|.++-+|+|+|..
T Consensus       314 ~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~--r~G~~~~~~~dvRiIaat~~~  373 (538)
T PRK15424        314 RAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVT--RVGGHQPVPVDVRVISATHCD  373 (538)
T ss_pred             cCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEE--ecCCCceeccceEEEEecCCC
Confidence            368889999999999999999999999999999999876  467677889999999999875

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.36  E-value=5.7e-06  Score=76.12  Aligned_cols=60  Identities=13%  Similarity=0.257  Sum_probs=52.8

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      .+|.+..|+||++||||++.|+.+.+..|+.+++++.++  +.|.....|.++-||+|+|..
T Consensus       408 ~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~--~~~~~~~~~~~~riI~~t~~~  467 (638)
T PRK11388        408 RLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVIT--RLDSRRLIPVDVRVIATTTAD  467 (638)
T ss_pred             CCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEE--eCCCCceEEeeEEEEEeccCC
Confidence            367888999999999999999999999999999999875  356667778899999999874

>KOG1942|consensus

Probab=98.33  E-value=6e-06  Score=67.90  Aligned_cols=138  Identities=23%  Similarity=0.242  Sum_probs=91.9

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC----CCCCCCCcccccccCCCCCCCcc
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV----FGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~----~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      -||+||||.+.++-+.-..|+.++|+              |--..||-|+|--    .|.-|-   .....+|..||||.
T Consensus       297 PGVLFIDEVhMLDiEcFTyL~kalES--------------~iaPivifAsNrG~~~irGt~d~---~sPhGip~dllDRl  359 (456)
T KOG1942|consen  297 PGVLFIDEVHMLDIECFTYLHKALES--------------PIAPIVIFASNRGMCTIRGTEDI---LSPHGIPPDLLDRL  359 (456)
T ss_pred             CcceEeeehhhhhhHHHHHHHHHhcC--------------CCCceEEEecCCcceeecCCcCC---CCCCCCCHHHhhhe
Confidence            38999999999999999999999996              2234455555542    121110   23345889999998


Q ss_pred             cEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCC
Q psy7187          87 DMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGS  166 (214)
Q Consensus        87 DL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~  166 (214)
                       +++....+++.    .+ +.|+..+...                           -...+++++..++.+.        
T Consensus       360 -~Iirt~~y~~~----e~-r~Ii~~Ra~~---------------------------E~l~~~e~a~~~l~~~--------  398 (456)
T KOG1942|consen  360 -LIIRTLPYDEE----EI-RQIIKIRAQV---------------------------EGLQVEEEALDLLAEI--------  398 (456)
T ss_pred             -eEEeeccCCHH----HH-HHHHHHHHhh---------------------------hcceecHHHHHHHHhh--------
Confidence             66655433321    22 1222222110                           0225778887777543        


Q ss_pred             CcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         167 KEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       167 ~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                              ....|.|.-..|+-=+--+|+.++++.|..+||.++..||
T Consensus       399 --------gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~Lf  438 (456)
T KOG1942|consen  399 --------GTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTELF  438 (456)
T ss_pred             --------ccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHHHH
Confidence                    1345777777888778889999999999999999999887

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

Probab=98.33  E-value=3.5e-07  Score=70.18  Aligned_cols=60  Identities=15%  Similarity=0.336  Sum_probs=49.6

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      ++|.|..|+||++||||++.|++..+..|+++|++|++.-  -|.....+.++-||+++|-.
T Consensus        85 ~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~--~g~~~~~~~~~RiI~st~~~  144 (168)
T PF00158_consen   85 KKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTR--LGSDKPVPVDVRIIASTSKD  144 (168)
T ss_dssp             BEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEEC--CTSSSEEE--EEEEEEESS-
T ss_pred             cCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhcc--ccccccccccceEEeecCcC
Confidence            3689999999999999999999999999999999998754  45556778899999999864

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

>PRK15115 response regulator GlrR; Provisional

Probab=98.32  E-value=1.4e-05  Score=70.26  Aligned_cols=59  Identities=17%  Similarity=0.368  Sum_probs=51.2

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +|.+-.|+||.+||||++.++.+.+..|...|+++.+.  +.|.+...+.++-+|+|++..
T Consensus       221 ~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~--~~g~~~~~~~~~rii~~~~~~  279 (444)
T PRK15115        221 EGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVR--PLGSNRDIDIDVRIISATHRD  279 (444)
T ss_pred             CCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEE--eCCCCceeeeeEEEEEeCCCC
Confidence            57889999999999999999999999999999999874  356556677889999998863

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.31  E-value=9.2e-06  Score=71.80  Aligned_cols=59  Identities=22%  Similarity=0.340  Sum_probs=50.4

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      .|.+-.|+||.+||||++.++.+.+..|++.+++|.++-  .|.....+.++-||+++|..
T Consensus       221 ~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~--~~~~~~~~~~~rii~~~~~~  279 (463)
T TIGR01818       221 QGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYR--VGGRTPIKVDVRIVAATHQN  279 (463)
T ss_pred             CCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEE--CCCCceeeeeeEEEEeCCCC
Confidence            467889999999999999999999999999999998765  45445666778899999875

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

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

Probab=98.28  E-value=2.3e-06  Score=74.27  Aligned_cols=59  Identities=20%  Similarity=0.332  Sum_probs=45.4

Q ss_pred             cceeeccCCceEeeccCCCCCH--------------HHHHHHHHhhhcCeEE-EE-ecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMRE--------------DDRVAIHEAMEQQTIS-IA-KAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~-i~-~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +|.+..+.+||+|+||++++++              ++++.|+++|| |+++ +. ..|....+ .++.+|.|+|..
T Consensus       174 ~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLe-G~~~~v~~~~gr~~~~-~~~i~i~TsNil  248 (413)
T TIGR00382       174 DYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIE-GTVANVPPQGGRKHPY-QEFIQIDTSNIL  248 (413)
T ss_pred             cccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhh-ccceecccCCCccccC-CCeEEEEcCCce
Confidence            4566678899999999999987              68999999996 6554 33 34444433 569999999993

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

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.25  E-value=1e-05  Score=72.69  Aligned_cols=103  Identities=17%  Similarity=0.288  Sum_probs=66.6

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+-.|+||.+||||++.|+...+..|+..+++|++.  +.|.....+.++-||+|++..-...     .....+...|
T Consensus       291 ~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~--~~g~~~~~~~~vRiI~st~~~l~~l-----~~~g~f~~dL  363 (520)
T PRK10820        291 KGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFR--RVGEDHEVHVDVRVICATQKNLVEL-----VQKGEFREDL  363 (520)
T ss_pred             CChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcc--cCCCCcceeeeeEEEEecCCCHHHH-----HHcCCccHHH
Confidence            46677899999999999999999999999999998763  3555555677788888876531000     1112255667


Q ss_pred             CCccc-EEEEecCCCCcccc-HHHHHHHHHHH
Q psy7187          83 LSRFD-MIFIIKDEHDETRD-ITLAKHIMKVH  112 (214)
Q Consensus        83 ldRFD-L~~~~~~~~~~~~d-~~ia~~il~~~  112 (214)
                      +.|+. +.+.++.-.+...| ..++++.++..
T Consensus       364 ~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~  395 (520)
T PRK10820        364 YYRLNVLTLNLPPLRDRPQDIMPLTELFVARF  395 (520)
T ss_pred             HhhcCeeEEeCCCcccChhHHHHHHHHHHHHH
Confidence            77765 33334333333323 24455555543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.09  E-value=6.4e-05  Score=61.61  Aligned_cols=144  Identities=19%  Similarity=0.154  Sum_probs=82.8

Q ss_pred             eeeccCCceEeeccCCCCC--------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187           5 AMVLADGGVVCIDEFDKMR--------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~~--------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      .+..|.+||+||||++.+.        .+.++.|+..|+++.             .++.++++.+|....       .-.
T Consensus       100 ~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~-------------~~~~vila~~~~~~~-------~~~  159 (261)
T TIGR02881       100 VIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNR-------------NEFVLILAGYSDEMD-------YFL  159 (261)
T ss_pred             HHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccC-------------CCEEEEecCCcchhH-------HHH
Confidence            3456789999999999865        457788999998742             346666666664211       112


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLK  156 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~  156 (214)
                      .++++|.+||+..+.+.+.. .+.-..+..+.+                              ++ ....+++++..+|.
T Consensus       160 ~~~p~L~sRf~~~i~f~~~~-~~el~~Il~~~~------------------------------~~-~~~~l~~~a~~~l~  207 (261)
T TIGR02881       160 SLNPGLRSRFPISIDFPDYT-VEELMEIAERMV------------------------------KE-REYKLTEEAKWKLR  207 (261)
T ss_pred             hcChHHHhccceEEEECCCC-HHHHHHHHHHHH------------------------------HH-cCCccCHHHHHHHH
Confidence            47789999998877665432 221112211111                              11 12247778888877


Q ss_pred             HHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccC--CCCCCcHHHH
Q psy7187         157 NRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ--LEPFAIDSHV  207 (214)
Q Consensus       157 ~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~--~r~~V~~~Dv  207 (214)
                      .++...+.....       .+-..|.+..++..|..+...+  ..+.++.+|.
T Consensus       208 ~~~~~~~~~~~~-------~~gn~R~~~n~~e~a~~~~~~r~~~~~~~~~~~~  253 (261)
T TIGR02881       208 EHLYKVDQLSSR-------EFSNARYVRNIIEKAIRRQAVRLLDKSDYSKEDL  253 (261)
T ss_pred             HHHHHHHhccCC-------CCchHHHHHHHHHHHHHHHHHHHhccCCCCHHHH
Confidence            766555431111       1224577766666665555433  2244555554

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.09  E-value=1.5e-05  Score=66.27  Aligned_cols=72  Identities=22%  Similarity=0.165  Sum_probs=51.7

Q ss_pred             eeeccCCceEeeccCCCC---------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccc
Q psy7187           5 AMVLADGGVVCIDEFDKM---------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQN   75 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~---------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~   75 (214)
                      .+-.|.|||+||||++.+         ...+++.|++.|+++.             .++.||+|.++..-       ..-
T Consensus       116 ~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~-------------~~~~vI~a~~~~~~-------~~~  175 (284)
T TIGR02880       116 ILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQR-------------DDLVVILAGYKDRM-------DSF  175 (284)
T ss_pred             HHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCC-------------CCEEEEEeCCcHHH-------HHH
Confidence            355678999999999976         3567789999998653             35778888776410       011


Q ss_pred             ccCCCCCCCcccEEEEecCCC
Q psy7187          76 IDFMPTILSRFDMIFIIKDEH   96 (214)
Q Consensus        76 ~~l~~~lldRFDL~~~~~~~~   96 (214)
                      ..+.++|.+||+..+.+.+..
T Consensus       176 ~~~np~L~sR~~~~i~fp~l~  196 (284)
T TIGR02880       176 FESNPGFSSRVAHHVDFPDYS  196 (284)
T ss_pred             HhhCHHHHhhCCcEEEeCCcC
Confidence            246789999999888776554

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.

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

Probab=98.00  E-value=1.3e-05  Score=74.79  Aligned_cols=83  Identities=18%  Similarity=0.230  Sum_probs=58.7

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC-----CC--CCCCc--c----cccc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF-----GR--WDDTK--G----EQNI   76 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~-----g~--~~~~~--~----~~~~   76 (214)
                      ..||+++||++++++++++.|+++|++|.++-. .|....+ .++.+|+|+|.-.     ..  +....  .    .-..
T Consensus       557 p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~-~g~~vd~-rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~  634 (758)
T PRK11034        557 PHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDN-NGRKADF-RNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKK  634 (758)
T ss_pred             CCcEEEeccHhhhhHHHHHHHHHHHhcCeeecC-CCceecC-CCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHH
Confidence            568999999999999999999999999999864 3443332 4678999999531     00  11000  0    1124


Q ss_pred             cCCCCCCCcccEEEEecC
Q psy7187          77 DFMPTILSRFDMIFIIKD   94 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~   94 (214)
                      .+++.|+.|+|-++....
T Consensus       635 ~f~pefl~Rid~ii~f~~  652 (758)
T PRK11034        635 IFTPEFRNRLDNIIWFDH  652 (758)
T ss_pred             hcCHHHHccCCEEEEcCC
Confidence            588999999997776543

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

Probab=97.93  E-value=6.5e-06  Score=63.32  Aligned_cols=59  Identities=25%  Similarity=0.298  Sum_probs=48.0

Q ss_pred             cceeeccCCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      +|.+-.+++||+|+|||+|.++           .+++.|+++||.|+++-.+ |....+ .++.+|+|+|-.
T Consensus        61 ~~~v~~~~~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~-g~~vd~-~n~ifI~Tsn~~  130 (171)
T PF07724_consen   61 PGYVGAEEGGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSY-GRTVDT-SNIIFIMTSNFG  130 (171)
T ss_dssp             TCHHHHHHHTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETT-CCEEEG-TTEEEEEEESSS
T ss_pred             cceeeccchhhhhhHHHhhccccccccchhhHHHHHHHHHHHhcccceeccc-ceEEEe-CCceEEEecccc
Confidence            4555667789999999999999           9999999999999999543 333333 369999999985

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

>CHL00181 cbbX CbbX; Provisional

Probab=97.85  E-value=8.9e-05  Score=61.72  Aligned_cols=72  Identities=22%  Similarity=0.163  Sum_probs=50.8

Q ss_pred             eeeccCCceEeeccCCCC---------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccc
Q psy7187           5 AMVLADGGVVCIDEFDKM---------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQN   75 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~---------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~   75 (214)
                      .+..|.|||+||||++.+         ..++++.|++.|+.+.             -++.||+|.++..-       ..-
T Consensus       117 ~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~-------------~~~~vI~ag~~~~~-------~~~  176 (287)
T CHL00181        117 VLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQR-------------DDLVVIFAGYKDRM-------DKF  176 (287)
T ss_pred             HHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCC-------------CCEEEEEeCCcHHH-------HHH
Confidence            345688999999999875         5678889999998643             24677777665310       011


Q ss_pred             ccCCCCCCCcccEEEEecCCC
Q psy7187          76 IDFMPTILSRFDMIFIIKDEH   96 (214)
Q Consensus        76 ~~l~~~lldRFDL~~~~~~~~   96 (214)
                      ..+.++|.+||+..+.+.+..
T Consensus       177 ~~~np~L~sR~~~~i~F~~~t  197 (287)
T CHL00181        177 YESNPGLSSRIANHVDFPDYT  197 (287)
T ss_pred             HhcCHHHHHhCCceEEcCCcC
Confidence            235688999999888776553

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

Probab=97.84  E-value=0.00013  Score=62.39  Aligned_cols=59  Identities=27%  Similarity=0.422  Sum_probs=46.3

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      +=|+||||+.+|++..+++|+-.||.|+|++.-+  +           |-||.+.            +.++|+||- .+|
T Consensus       105 ~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGA--T-----------TENPsF~------------ln~ALlSR~-~vf  158 (436)
T COG2256         105 RTILFLDEIHRFNKAQQDALLPHVENGTIILIGA--T-----------TENPSFE------------LNPALLSRA-RVF  158 (436)
T ss_pred             ceEEEEehhhhcChhhhhhhhhhhcCCeEEEEec--c-----------CCCCCee------------ecHHHhhhh-hee
Confidence            4589999999999999999999999999887332  2           2366433            889999999 566


Q ss_pred             EecCC
Q psy7187          91 IIKDE   95 (214)
Q Consensus        91 ~~~~~   95 (214)
                      .+..-
T Consensus       159 ~lk~L  163 (436)
T COG2256         159 ELKPL  163 (436)
T ss_pred             eeecC
Confidence            66443

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

Probab=97.83  E-value=6.4e-05  Score=70.58  Aligned_cols=82  Identities=23%  Similarity=0.402  Sum_probs=54.2

Q ss_pred             CCceEeeccCCCCCHHH----HHHHHHhhhc-CeEEEEe--cceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          10 DGGVVCIDEFDKMREDD----RVAIHEAMEQ-QTISIAK--AGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~----~~~L~e~me~-~~i~i~~--~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      .+.|+++||++++.++.    .++|+++|+. +..+..-  -+..+.+ .++.+|||+|..             .|+++|
T Consensus       416 ~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dl-s~v~~i~TaN~~-------------~i~~aL  481 (784)
T PRK10787        416 KNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDL-SDVMFVATSNSM-------------NIPAPL  481 (784)
T ss_pred             CCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccC-CceEEEEcCCCC-------------CCCHHH
Confidence            45699999999999875    4899999995 4444421  1122222 468899999874             299999


Q ss_pred             CCcccEEEEecCCCCccccHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKH  107 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~  107 (214)
                      +|||++ +..... ..+.-..|+++
T Consensus       482 l~R~~i-i~~~~~-t~eek~~Ia~~  504 (784)
T PRK10787        482 LDRMEV-IRLSGY-TEDEKLNIAKR  504 (784)
T ss_pred             hcceee-eecCCC-CHHHHHHHHHH
Confidence            999964 434333 33333444444

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.81  E-value=9.5e-05  Score=70.26  Aligned_cols=83  Identities=19%  Similarity=0.249  Sum_probs=59.0

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCC----C-CC-cc-------cccc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRW----D-DT-KG-------EQNI   76 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~----~-~~-~~-------~~~~   76 (214)
                      ...|+++||++++++++++.|+++|++|.++-. .|..+.+ .++.||+|+|--...+    . .. ..       .-..
T Consensus       667 p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~-~g~~vd~-rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~  744 (852)
T TIGR03346       667 PYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDG-QGRTVDF-RNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRA  744 (852)
T ss_pred             CCcEEEEeccccCCHHHHHHHHHHHhcCceecC-CCeEEec-CCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHh
Confidence            346999999999999999999999999999853 3444444 3688999999842111    0 00 00       1234


Q ss_pred             cCCCCCCCcccEEEEecC
Q psy7187          77 DFMPTILSRFDMIFIIKD   94 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~   94 (214)
                      .+++.|+.|+|-++....
T Consensus       745 ~F~pel~~Rid~IivF~P  762 (852)
T TIGR03346       745 HFRPEFLNRIDEIVVFHP  762 (852)
T ss_pred             hcCHHHhcCcCeEEecCC
Confidence            588999999997666543

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

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.79  E-value=0.00016  Score=67.17  Aligned_cols=143  Identities=15%  Similarity=0.199  Sum_probs=83.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      .|.+.+|+||++||||++.++.+.+..|+.+++++.+.-  .|.....+.++-+|+++|..-...     .....+...|
T Consensus       463 ~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~--~g~~~~~~~~~RiI~~t~~~l~~~-----~~~~~f~~~L  535 (686)
T PRK15429        463 IGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFER--LGSNKIIQTDVRLIAATNRDLKKM-----VADREFRSDL  535 (686)
T ss_pred             hhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEe--CCCCCcccceEEEEEeCCCCHHHH-----HHcCcccHHH
Confidence            366778999999999999999999999999999987654  555566678899999998751100     1111244445


Q ss_pred             CCcccEE-EEecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMI-FIIKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~-~~~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.|+... +.++.-.+...| ..++++.+........+    ....++.+.++....|    -+|-==.|.++.+.++..
T Consensus       536 ~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~----~~~~~s~~al~~L~~y----~WPGNvrEL~~~i~~a~~  607 (686)
T PRK15429        536 YYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGR----NIDSIPAETLRTLSNM----EWPGNVRELENVIERAVL  607 (686)
T ss_pred             HhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCC----CCCCcCHHHHHHHHhC----CCCCcHHHHHHHHHHHHH
Confidence            5555432 222222222222 25556665554332111    1123555555554332    234333466666666654

>TIGR00763 lon ATP-dependent protease La

Probab=97.66  E-value=0.00013  Score=68.75  Aligned_cols=82  Identities=22%  Similarity=0.304  Sum_probs=51.9

Q ss_pred             CCceEeeccCCCCCHHH----HHHHHHhhhc---CeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          10 DGGVVCIDEFDKMREDD----RVAIHEAMEQ---QTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~----~~~L~e~me~---~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      .+.|++|||++++.++.    .++|++.|+.   +..+-..-+..+.+ .++.+|+|+|+...            ++++|
T Consensus       414 ~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~-s~v~~I~TtN~~~~------------i~~~L  480 (775)
T TIGR00763       414 KNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDL-SKVIFIATANSIDT------------IPRPL  480 (775)
T ss_pred             CCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceecc-CCEEEEEecCCchh------------CCHHH
Confidence            55799999999997643    4789999984   22221111222222 36788999999533            89999


Q ss_pred             CCcccEEEEecCCCCccccHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAK  106 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~  106 (214)
                      +|||++ +.+ ...+.+....|+.
T Consensus       481 ~~R~~v-i~~-~~~~~~e~~~I~~  502 (775)
T TIGR00763       481 LDRMEV-IEL-SGYTEEEKLEIAK  502 (775)
T ss_pred             hCCeeE-Eec-CCCCHHHHHHHHH
Confidence            999974 333 3334444444443

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

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

Probab=97.63  E-value=9.3e-05  Score=69.23  Aligned_cols=99  Identities=15%  Similarity=0.163  Sum_probs=65.9

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCC-----CCCCcc--------ccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGR-----WDDTKG--------EQN   75 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~-----~~~~~~--------~~~   75 (214)
                      ...+|+++||++++++++.+.|+++|++|.++-. .|..+.+. ++.+|+|+|.-...     .+....        .-.
T Consensus       552 ~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~-~g~~vd~~-~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~  629 (731)
T TIGR02639       552 HPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDN-NGRKADFR-NVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIK  629 (731)
T ss_pred             CCCeEEEEechhhcCHHHHHHHHHhhccCeeecC-CCcccCCC-CCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHH
Confidence            3568999999999999999999999999999854 34444333 68899999984211     111100        112


Q ss_pred             ccCCCCCCCcccEEEEecCCCCccccHHHHHHHHH
Q psy7187          76 IDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMK  110 (214)
Q Consensus        76 ~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~  110 (214)
                      ..+++.|++|||-++.+.. -+.+.-.+|.++.++
T Consensus       630 ~~f~pef~~Rid~Vi~F~p-Ls~e~l~~Iv~~~L~  663 (731)
T TIGR02639       630 KLFSPEFRNRLDAIIHFNP-LSEEVLEKIVQKFVD  663 (731)
T ss_pred             hhcChHHHhcCCeEEEcCC-CCHHHHHHHHHHHHH
Confidence            3578999999997666543 344444444444433

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.62  E-value=0.00019  Score=68.10  Aligned_cols=154  Identities=16%  Similarity=0.181  Sum_probs=92.9

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCC-----CCC-----cc-------
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRW-----DDT-----KG-------   72 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~-----~~~-----~~-------   72 (214)
                      ..+|+++||++++++++.+.|+++|++|.++-. .|..+.+. ++.+|.|+|--.+.+     +..     ..       
T Consensus       668 p~svvllDEieka~~~v~~~Llq~ld~g~l~d~-~Gr~vd~~-n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~  745 (852)
T TIGR03345       668 PYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDG-EGREIDFK-NTVILLTSNAGSDLIMALCADPETAPDPEALLEALRP  745 (852)
T ss_pred             CCcEEEEechhhcCHHHHHHHHHHhhcceeecC-CCcEEecc-ccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHH
Confidence            557999999999999999999999999999864 45555554 699999999742211     111     00       


Q ss_pred             cccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHh-ccCCCCCHHH
Q psy7187          73 EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRM-RCGPRLTHEA  151 (214)
Q Consensus        73 ~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~-~~~p~ls~ea  151 (214)
                      .-...++++|++|+|+ +.+ .+-+.+.-..|...-+....                   ++   +.++ .+...+++++
T Consensus       746 ~~~~~f~PEflnRi~i-I~F-~pLs~e~l~~Iv~~~L~~l~-------------------~r---l~~~~gi~l~i~d~a  801 (852)
T TIGR03345       746 ELLKVFKPAFLGRMTV-IPY-LPLDDDVLAAIVRLKLDRIA-------------------RR---LKENHGAELVYSEAL  801 (852)
T ss_pred             HHHHhccHHHhcceeE-EEe-CCCCHHHHHHHHHHHHHHHH-------------------HH---HHHhcCceEEECHHH
Confidence            1123588999999983 433 33343333333333222111                   11   1111 1234688999


Q ss_pred             HHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHH--HHHHHhccCCCCCCc
Q psy7187         152 GEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVR--IAESMAKMQLEPFAI  203 (214)
Q Consensus       152 ~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lir--lA~a~A~l~~r~~V~  203 (214)
                      .++|.....              +.....|.+..+|+  +...+|++-+...++
T Consensus       802 ~~~La~~g~--------------~~~~GAR~L~r~Ie~~i~~~la~~~l~~~~~  841 (852)
T TIGR03345       802 VEHIVARCT--------------EVESGARNIDAILNQTLLPELSRQILERLAA  841 (852)
T ss_pred             HHHHHHHcC--------------CCCCChHHHHHHHHHHHHHHHHHHHHhChhc
Confidence            988876531              12345777777663  445566555544433

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.62  E-value=0.00037  Score=66.09  Aligned_cols=82  Identities=20%  Similarity=0.271  Sum_probs=59.5

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCC-------C--CCCC--c----c---
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFG-------R--WDDT--K----G---   72 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g-------~--~~~~--~----~---   72 (214)
                      ..|+++||++++++++.+.|+++||+|.++-.+ |....+ .++.+|.|+|....       .  |...  .    .   
T Consensus       612 ~~VvllDeieka~~~v~~~Llq~le~g~~~d~~-g~~v~~-~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~  689 (821)
T CHL00095        612 YTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSK-GRTIDF-KNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKR  689 (821)
T ss_pred             CeEEEECChhhCCHHHHHHHHHHhccCceecCC-CcEEec-CceEEEEeCCcchHHHHhhccccCCcccccccccccHHH
Confidence            479999999999999999999999999999755 555555 47999999997421       1  1110  0    0   


Q ss_pred             -c------ccccCCCCCCCcccEEEEecC
Q psy7187          73 -E------QNIDFMPTILSRFDMIFIIKD   94 (214)
Q Consensus        73 -~------~~~~l~~~lldRFDL~~~~~~   94 (214)
                       .      -...+++.|++|+|-++....
T Consensus       690 ~~~~~~~~~~~~f~peflnRid~ii~F~p  718 (821)
T CHL00095        690 LSNLVNEELKQFFRPEFLNRLDEIIVFRQ  718 (821)
T ss_pred             HHHHHHHHHHHhcCHHHhccCCeEEEeCC
Confidence             0      012478999999987666543

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=97.60  E-value=0.00024  Score=63.81  Aligned_cols=58  Identities=22%  Similarity=0.330  Sum_probs=51.9

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      -|.+-+||||.+|+|||..||-..++.|+.++++|+|+-  -|.+. .|.++.||+|++-.
T Consensus       400 ~g~~~~A~gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p--~g~~~-~~vdirvi~ath~d  457 (606)
T COG3284         400 KGKLEQADGGTLFLDEIGDMPLALQSRLLRVLQEGVVTP--LGGTR-IKVDIRVIAATHRD  457 (606)
T ss_pred             cccceecCCCccHHHHhhhchHHHHHHHHHHHhhCceec--cCCcc-eeEEEEEEeccCcC
Confidence            377889999999999999999999999999999999986  45555 79999999999875

>KOG2680|consensus

Probab=97.55  E-value=0.0016  Score=54.03  Aligned_cols=136  Identities=16%  Similarity=0.198  Sum_probs=93.4

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC----CCC-CCCCcccccccCCCCCCCc
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV----FGR-WDDTKGEQNIDFMPTILSR   85 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~----~g~-~~~~~~~~~~~l~~~lldR   85 (214)
                      -||+||||...++-+--+.|..|+|+--.              ..++.|+|--    .|. |     .....+|-.||||
T Consensus       289 pGVLFIDEvHMLDIEcFsFlNrAlE~d~~--------------PiiimaTNrgit~iRGTn~-----~SphGiP~D~lDR  349 (454)
T KOG2680|consen  289 PGVLFIDEVHMLDIECFSFLNRALENDMA--------------PIIIMATNRGITRIRGTNY-----RSPHGIPIDLLDR  349 (454)
T ss_pred             cceEEEeeehhhhhHHHHHHHHHhhhccC--------------cEEEEEcCCceEEeecCCC-----CCCCCCcHHHhhh
Confidence            59999999999999999999999986332              2344555543    121 1     1223488899999


Q ss_pred             ccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcC
Q psy7187          86 FDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNG  165 (214)
Q Consensus        86 FDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~  165 (214)
                      . |++.+.....    +.+ +.|++-+...                           -...++++|.++|...-      
T Consensus       350 ~-lII~t~py~~----~d~-~~IL~iRc~E---------------------------Edv~m~~~A~d~Lt~i~------  390 (454)
T KOG2680|consen  350 M-LIISTQPYTE----EDI-KKILRIRCQE---------------------------EDVEMNPDALDLLTKIG------  390 (454)
T ss_pred             h-heeecccCcH----HHH-HHHHHhhhhh---------------------------hccccCHHHHHHHHHhh------
Confidence            7 6665533221    111 2233322110                           13467889999887653      


Q ss_pred             CCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         166 SKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       166 ~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                                ...|.|.-..||-.|.-.+.=+....|+.+|+..|-+||
T Consensus       391 ----------~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~LF  429 (454)
T KOG2680|consen  391 ----------EATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYRLF  429 (454)
T ss_pred             ----------hhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHHHH
Confidence                      235788888999999999998899999999999999987

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

Probab=97.48  E-value=0.00032  Score=65.13  Aligned_cols=79  Identities=19%  Similarity=0.294  Sum_probs=58.0

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCC----CCC---C--c---c----ccc
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGR----WDD---T--K---G----EQN   75 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~----~~~---~--~---~----~~~   75 (214)
                      .|+++||++|.++++.+.|+|+|+.|.++=.++. ++.| .++.||+|+|-..+.    ...   .  .   .    .-.
T Consensus       595 SViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr-~VdF-rNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~  672 (786)
T COG0542         595 SVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGR-TVDF-RNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELK  672 (786)
T ss_pred             eEEEechhhhcCHHHHHHHHHHhcCCeeecCCCC-EEec-ceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHH
Confidence            5899999999999999999999999999976553 3333 369999999996211    110   0  1   1    112


Q ss_pred             ccCCCCCCCcccEEEEe
Q psy7187          76 IDFMPTILSRFDMIFII   92 (214)
Q Consensus        76 ~~l~~~lldRFDL~~~~   92 (214)
                      ..+++.||.|+|-++..
T Consensus       673 ~~F~PEFLNRid~II~F  689 (786)
T COG0542         673 KHFRPEFLNRIDEIIPF  689 (786)
T ss_pred             hhCCHHHHhhcccEEec
Confidence            46889999999965554

>KOG2028|consensus

Probab=97.43  E-value=0.00069  Score=57.62  Aligned_cols=56  Identities=23%  Similarity=0.440  Sum_probs=43.4

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      +-|+||||+.+|++..++.++-..|.|.|++.-+  +           |-||.+.            |..+|++|. .+|
T Consensus       223 kTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGA--T-----------TENPSFq------------ln~aLlSRC-~Vf  276 (554)
T KOG2028|consen  223 KTILFIDEIHRFNKSQQDTFLPHVENGDITLIGA--T-----------TENPSFQ------------LNAALLSRC-RVF  276 (554)
T ss_pred             eeEEEeHHhhhhhhhhhhcccceeccCceEEEec--c-----------cCCCccc------------hhHHHHhcc-cee
Confidence            4689999999999999999999999998887333  2           2356433            779999999 555


Q ss_pred             Ee
Q psy7187          91 II   92 (214)
Q Consensus        91 ~~   92 (214)
                      ++
T Consensus       277 vL  278 (554)
T KOG2028|consen  277 VL  278 (554)
T ss_pred             Ee
Confidence            54

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.40  E-value=0.001  Score=63.28  Aligned_cols=97  Identities=16%  Similarity=0.262  Sum_probs=63.6

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCC----CCCCCc-----c----cccc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFG----RWDDTK-----G----EQNI   76 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g----~~~~~~-----~----~~~~   76 (214)
                      ..+|+++||++++++++++.|+++|++|.++-. .|..+.+ .++.+|.|+|....    .++...     .    ....
T Consensus       670 p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~-~gr~vd~-rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~  747 (857)
T PRK10865        670 PYSVILLDEVEKAHPDVFNILLQVLDDGRLTDG-QGRTVDF-RNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSH  747 (857)
T ss_pred             CCCeEEEeehhhCCHHHHHHHHHHHhhCceecC-CceEEee-cccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcc
Confidence            458999999999999999999999999998743 3444443 35779999998311    111110     0    1233


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIM  109 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il  109 (214)
                      .+.+.|+.|+|-++..... +.+.-..|.++.+
T Consensus       748 ~f~PELlnRld~iivF~PL-~~edl~~Iv~~~L  779 (857)
T PRK10865        748 NFRPEFINRIDEVVVFHPL-GEQHIASIAQIQL  779 (857)
T ss_pred             cccHHHHHhCCeeEecCCC-CHHHHHHHHHHHH
Confidence            5789999999876665443 3333334444433

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

Probab=97.36  E-value=0.0037  Score=58.38  Aligned_cols=30  Identities=23%  Similarity=0.345  Sum_probs=26.6

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTI   39 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i   39 (214)
                      +++++||||++.|+...++.|+..||+|.+
T Consensus       109 ~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~I  138 (725)
T PRK13341        109 KRTILFIDEVHRFNKAQQDALLPWVENGTI  138 (725)
T ss_pred             CceEEEEeChhhCCHHHHHHHHHHhcCceE
Confidence            467999999999999999999999997654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.33  E-value=0.0042  Score=55.26  Aligned_cols=53  Identities=30%  Similarity=0.354  Sum_probs=40.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceE-EEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCS-VLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~-viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ++..|++|||++.|..+.++.|+..||+.             |..+. ++++.||.             .+++++.+|+.
T Consensus       116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p-------------~~~vv~Ilattn~~-------------kl~~~L~SR~~  169 (472)
T PRK14962        116 GKYKVYIIDEVHMLTKEAFNALLKTLEEP-------------PSHVVFVLATTNLE-------------KVPPTIISRCQ  169 (472)
T ss_pred             CCeEEEEEEChHHhHHHHHHHHHHHHHhC-------------CCcEEEEEEeCChH-------------hhhHHHhcCcE
Confidence            56789999999999999999999999961             11233 44556663             27889999995

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.33  E-value=0.0034  Score=54.90  Aligned_cols=56  Identities=29%  Similarity=0.515  Sum_probs=41.9

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEee--cCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA--NSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~--Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      .++|++|||++.++...++.|+..||++++.               +++++  ||..            .+.++|++|+ 
T Consensus        92 ~~~vL~IDEi~~l~~~~q~~LL~~le~~~ii---------------lI~att~n~~~------------~l~~aL~SR~-  143 (413)
T PRK13342         92 RRTILFIDEIHRFNKAQQDALLPHVEDGTIT---------------LIGATTENPSF------------EVNPALLSRA-  143 (413)
T ss_pred             CceEEEEechhhhCHHHHHHHHHHhhcCcEE---------------EEEeCCCChhh------------hccHHHhccc-
Confidence            6789999999999999999999999986543               34443  4432            3778999999 


Q ss_pred             EEEEec
Q psy7187          88 MIFIIK   93 (214)
Q Consensus        88 L~~~~~   93 (214)
                      .++.+.
T Consensus       144 ~~~~~~  149 (413)
T PRK13342        144 QVFELK  149 (413)
T ss_pred             eeeEeC
Confidence            444443

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

Probab=97.30  E-value=0.00069  Score=58.95  Aligned_cols=143  Identities=19%  Similarity=0.263  Sum_probs=88.1

Q ss_pred             eecc-CCceEeeccCCCCCH------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc
Q psy7187           6 MVLA-DGGVVCIDEFDKMRE------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG   72 (214)
Q Consensus         6 l~la-~~Gv~~iDE~~~~~~------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~   72 (214)
                      +..| +.||+|||||+|+..            .++..|+-.||--+|++ |.|   +..++..++-    |+|-|...++
T Consensus       244 i~~ae~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~-k~~---~i~T~~ILFI----~~GAF~~~kp  315 (443)
T PRK05201        244 IERVEQNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVST-KYG---MVKTDHILFI----ASGAFHVSKP  315 (443)
T ss_pred             HHHHHcCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeee-cce---eEECCceeEE----ecCCcCCCCh
Confidence            4444 899999999999763            27888998888767765 333   2333322222    1355544333


Q ss_pred             cccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhH-hccCCCCCHHH
Q psy7187          73 EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCR-MRCGPRLTHEA  151 (214)
Q Consensus        73 ~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar-~~~~p~ls~ea  151 (214)
                         ..|-+.|..||.+++.+..-. .    .--.+||..               -...+++.|..+-+ ..+.-.++++|
T Consensus       316 ---~DlIPEl~GR~Pi~v~L~~L~-~----~dL~~ILte---------------P~nsLikQy~~Lf~~egv~L~Ftd~A  372 (443)
T PRK05201        316 ---SDLIPELQGRFPIRVELDALT-E----EDFVRILTE---------------PKASLIKQYQALLATEGVTLEFTDDA  372 (443)
T ss_pred             ---hhccHHHhCccceEEECCCCC-H----HHHHHHhcC---------------ChhHHHHHHHHHHhhcCcEEEEcHHH
Confidence               236689999999988875432 1    111233321               02347788876544 33345789999


Q ss_pred             HHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHH
Q psy7187         152 GEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVR  188 (214)
Q Consensus       152 ~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lir  188 (214)
                      .+.|.+........         .-++..|.|.+++.
T Consensus       373 l~~IA~~A~~~N~~---------~~~iGAR~LrtI~E  400 (443)
T PRK05201        373 IRRIAEIAYQVNEK---------TENIGARRLHTVME  400 (443)
T ss_pred             HHHHHHHHHHhccc---------ccccchhhHHHHHH
Confidence            99998877643221         13568898888765

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.23  E-value=0.0076  Score=52.37  Aligned_cols=36  Identities=17%  Similarity=0.016  Sum_probs=30.4

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.|.+.+..+.+-|.-.|--+.+..|+.+|+.+|+.
T Consensus       335 g~sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~  370 (389)
T PRK03992        335 GASGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIE  370 (389)
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            567788888888888888777888999999999975

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=97.11  E-value=0.0077  Score=48.56  Aligned_cols=70  Identities=21%  Similarity=0.468  Sum_probs=47.1

Q ss_pred             CCceEeeccCCCCCHHHHHHH-------HHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          10 DGGVVCIDEFDKMREDDRVAI-------HEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L-------~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      .|--+|+||+|+++.++++.+       ++++..+.-++.-.|....++..+.+..|+||...        ....||..|
T Consensus        84 ~GaW~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~--------gr~~LP~nL  155 (231)
T PF12774_consen   84 SGAWLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYA--------GRSELPENL  155 (231)
T ss_dssp             HT-EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CC--------CC--S-HHH
T ss_pred             cCchhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccC--------CcccCCHhH
Confidence            467799999999999877765       56666666666668999999999999999999632        123477777


Q ss_pred             CCccc
Q psy7187          83 LSRFD   87 (214)
Q Consensus        83 ldRFD   87 (214)
                      ..-|=
T Consensus       156 k~lFR  160 (231)
T PF12774_consen  156 KALFR  160 (231)
T ss_dssp             CTTEE
T ss_pred             HHHhh
Confidence            76664

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.08  E-value=0.00089  Score=66.43  Aligned_cols=82  Identities=22%  Similarity=0.383  Sum_probs=65.2

Q ss_pred             Ccceeecc--CCceEeeccCCCCCHHHHHHHHHhhh-cCeEEEEecc---eEEEEeCceEEEEeecCCCCCCCCCccccc
Q psy7187           2 EGGAMVLA--DGGVVCIDEFDKMREDDRVAIHEAME-QQTISIAKAG---ITTTLNSRCSVLAAANSVFGRWDDTKGEQN   75 (214)
Q Consensus         2 ~~G~l~la--~~Gv~~iDE~~~~~~~~~~~L~e~me-~~~i~i~~~g---~~~~lpa~~~viaa~Np~~g~~~~~~~~~~   75 (214)
                      .-|.|+.|  -|...++|||+..++++++.|-.++| ++++.+..-|   ...+-.-.|.++|||||- |.|      ..
T Consensus      1283 ~DGpLV~AMk~GdfFLlDEIsLAdDSVLERLNSVLE~~RtL~l~E~g~a~~~vtA~dgF~ffATMNPG-GDy------GK 1355 (4600)
T COG5271        1283 KDGPLVKAMKCGDFFLLDEISLADDSVLERLNSVLESQRTLYLTETGNAAEEVTAHDGFRFFATMNPG-GDY------GK 1355 (4600)
T ss_pred             ccchHHHHHhcCCeeEeeeccccchHHHHHHHHhhcccceEEEeecCCccceeeeccCceEEEeeCCC-Ccc------ch
Confidence            35777766  45788999999999999999999999 5788887666   566777789999999995 443      23


Q ss_pred             ccCCCCCCCcccEEE
Q psy7187          76 IDFMPTILSRFDMIF   90 (214)
Q Consensus        76 ~~l~~~lldRFDL~~   90 (214)
                      ..||++|..||-=+.
T Consensus      1356 kELSPALRNRFTEiw 1370 (4600)
T COG5271        1356 KELSPALRNRFTEIW 1370 (4600)
T ss_pred             hhCCHHHhcccceEe
Confidence            469999999996433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.08  E-value=0.0072  Score=51.97  Aligned_cols=36  Identities=17%  Similarity=0.110  Sum_probs=32.0

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.|.+.+..+.+-|..+|--+.+..|+.+|+.+|+.
T Consensus       326 g~sg~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~  361 (364)
T TIGR01242       326 GASGADLKAICTEAGMFAIREERDYVTMDDFIKAVE  361 (364)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence            467888889999999999888999999999999975

Many proteins may score above the trusted cutoff because an internal

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.07  E-value=0.0023  Score=55.77  Aligned_cols=141  Identities=17%  Similarity=0.276  Sum_probs=86.8

Q ss_pred             cCCceEeeccCCCCCH------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187           9 ADGGVVCIDEFDKMRE------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      +..||+|||||+|+..            .++..|+-.||--+|++ |.|   +..++..++-    |+|-|...++   .
T Consensus       246 e~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~-k~~---~v~T~~ILFI----~~GAF~~~kp---~  314 (441)
T TIGR00390       246 EQSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNT-KYG---MVKTDHILFI----AAGAFQLAKP---S  314 (441)
T ss_pred             HcCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeee-cce---eEECCceeEE----ecCCcCCCCh---h
Confidence            6899999999999764            27888998888766665 444   2333322222    1355543322   2


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHh-ccCCCCCHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRM-RCGPRLTHEAGEKL  155 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~-~~~p~ls~ea~~~i  155 (214)
                      .|-+.|..||.+++.+.+. +.    .--.+||..               -...+++.|..+-+. -+.-.++++|.+.|
T Consensus       315 DlIPEl~GR~Pi~v~L~~L-~~----edL~rILte---------------P~nsLikQy~~Lf~~egv~L~Ftd~Al~~I  374 (441)
T TIGR00390       315 DLIPELQGRFPIRVELQAL-TT----DDFERILTE---------------PKNSLIKQYKALMKTEGVNIEFSDEAIKRI  374 (441)
T ss_pred             hccHHHhCccceEEECCCC-CH----HHHHHHhcC---------------ChhHHHHHHHHHHhhcCcEEEEeHHHHHHH
Confidence            3668899999988877543 21    111233331               012477778755553 23346799999999


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHHHH
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRI  189 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirl  189 (214)
                      .+.........         -++..|.|.+++.-
T Consensus       375 A~~A~~~N~~~---------~~iGAR~LrtilE~  399 (441)
T TIGR00390       375 AELAYNVNEKT---------ENIGARRLHTVLER  399 (441)
T ss_pred             HHHHHHhcccc---------cccchhhHHHHHHH
Confidence            88876532221         35688998887653

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

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.04  E-value=0.012  Score=54.90  Aligned_cols=59  Identities=24%  Similarity=0.256  Sum_probs=42.5

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +...|++|||++.|+....++|+..||+-             |..+.+|.++|-..            +|+..|+||+ +
T Consensus       118 gr~KVIIIDEah~LT~~A~NALLKtLEEP-------------P~~v~FILaTtd~~------------KIp~TIrSRC-q  171 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEP-------------PPHVKFILATTDPQ------------KIPVTVLSRC-L  171 (830)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHHHhc-------------CCCeEEEEEECChh------------hccchhhhhe-E
Confidence            45679999999999999999999999972             22344444443211            3889999999 5


Q ss_pred             EEEec
Q psy7187          89 IFIIK   93 (214)
Q Consensus        89 ~~~~~   93 (214)
                      .|.+.
T Consensus       172 ~f~Fk  176 (830)
T PRK07003        172 QFNLK  176 (830)
T ss_pred             EEecC
Confidence            56553

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.03  E-value=0.011  Score=51.22  Aligned_cols=53  Identities=13%  Similarity=0.026  Sum_probs=39.8

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++.+++.+.....  .            =.+|....+++-|...|.-++++.|+.+||..|+.
T Consensus       228 ~~~~~~l~~i~~~~~~~--~------------Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~  280 (394)
T PRK00411        228 VVDDEVLDLIADLTARE--H------------GDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYE  280 (394)
T ss_pred             CCCHhHHHHHHHHHHHh--c------------CcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            36778888887765321  0            13677777888888888888999999999999875

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

Probab=97.01  E-value=0.0018  Score=59.28  Aligned_cols=70  Identities=26%  Similarity=0.350  Sum_probs=49.1

Q ss_pred             cCCceEeeccCCCCCHHH----HHHHHHhhh-cCeEEEE--ecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDD----RVAIHEAME-QQTISIA--KAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~----~~~L~e~me-~~~i~i~--~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      ..+=|..|||+++|..+.    -++|+|+|+ +|..+..  .-...+-| ++..+|||+|-...            +|.|
T Consensus       416 ~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDL-S~VmFiaTANsl~t------------IP~P  482 (782)
T COG0466         416 VKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDL-SKVMFIATANSLDT------------IPAP  482 (782)
T ss_pred             CcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccch-hheEEEeecCcccc------------CChH
Confidence            356789999999998753    469999998 4554442  11222222 35789999998644            9999


Q ss_pred             CCCcccEEEE
Q psy7187          82 ILSRFDMIFI   91 (214)
Q Consensus        82 lldRFDL~~~   91 (214)
                      ||||-.++-.
T Consensus       483 LlDRMEiI~l  492 (782)
T COG0466         483 LLDRMEVIRL  492 (782)
T ss_pred             Hhcceeeeee
Confidence            9999875443

>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=96.99  E-value=0.0013  Score=47.65  Aligned_cols=69  Identities=23%  Similarity=0.273  Sum_probs=52.5

Q ss_pred             eccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           7 VLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         7 ~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      ...+.+++++||++.++......+.+.|++.....       ..+.++.+++++|+...          ..+...+.+||
T Consensus        81 ~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~-------~~~~~~~ii~~~~~~~~----------~~~~~~~~~r~  143 (151)
T cd00009          81 EKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLR-------IDRENVRVIGATNRPLL----------GDLDRALYDRL  143 (151)
T ss_pred             ccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCcee-------ccCCCeEEEEecCcccc----------CCcChhHHhhh
Confidence            34578999999999998888888999998755433       34567999999998632          12678889999


Q ss_pred             cEEEEe
Q psy7187          87 DMIFII   92 (214)
Q Consensus        87 DL~~~~   92 (214)
                      |..+.+
T Consensus       144 ~~~i~~  149 (151)
T cd00009         144 DIRIVI  149 (151)
T ss_pred             ccEeec
Confidence            866654

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.

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

Probab=96.98  E-value=0.0035  Score=58.83  Aligned_cols=120  Identities=9%  Similarity=0.068  Sum_probs=73.2

Q ss_pred             CceEeeccCCCCC---------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187          11 GGVVCIDEFDKMR---------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus        11 ~Gv~~iDE~~~~~---------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      +.|+||||++.+-         .+..+.|...|+.|.               ..+|||+|+.+=       ...+...++
T Consensus       275 ~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~---------------i~~IgaTt~~e~-------~~~~~~d~a  332 (731)
T TIGR02639       275 NAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGK---------------LRCIGSTTYEEY-------KNHFEKDRA  332 (731)
T ss_pred             CeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCC---------------eEEEEecCHHHH-------HHHhhhhHH
Confidence            5799999999874         235667888777654               557899988420       012346789


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCC-CCCHHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGP-RLTHEAGEKLKNRYV  160 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p-~ls~ea~~~i~~~y~  160 (214)
                      |.+||.. +.+.. ++.+....|-+.+......       ..+-.++.+.+...+.++..++.- .+++.|.+++.....
T Consensus       333 l~rRf~~-i~v~~-p~~~~~~~il~~~~~~~e~-------~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a  403 (731)
T TIGR02639       333 LSRRFQK-IDVGE-PSIEETVKILKGLKEKYEE-------FHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGA  403 (731)
T ss_pred             HHHhCce-EEeCC-CCHHHHHHHHHHHHHHHHh-------ccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhh
Confidence            9999984 44433 3444333433333322111       122356777888777777776432 467788888876654


Q ss_pred             H
Q psy7187         161 L  161 (214)
Q Consensus       161 ~  161 (214)
                      .
T Consensus       404 ~  404 (731)
T TIGR02639       404 S  404 (731)
T ss_pred             h
Confidence            3

>KOG2545|consensus

Probab=96.96  E-value=0.053  Score=46.94  Aligned_cols=164  Identities=16%  Similarity=0.174  Sum_probs=111.0

Q ss_pred             CCcceeeccCCceEeeccCCCCCH-------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccc
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMRE-------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGE   73 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~-------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~   73 (214)
                      +.+|.|-+|.|-.+.+||=..-+-       ...+.|-.-+++|.++..-.=...+++++..|+-.+   +|+-      
T Consensus       364 LvsgvLQlapgThLVLDETeLqqGtLn~vGvhnvq~LsnLI~~Qkl~ydfqyyqme~~~nv~vlIlS---eGrs------  434 (543)
T KOG2545|consen  364 LVSGVLQLAPGTHLVLDETELQQGTLNDVGVHNVQFLSNLISQQKLTYDFQYYQMEVHSNVRVLILS---EGRS------  434 (543)
T ss_pred             cccceeecCCCceEEeehhhcCCCccCccchhhHHHHHHHhhccccceecceEEEEeccCceEEEee---CCcc------
Confidence            358999999999999999643221       245577777888888775444567788887777665   3431      


Q ss_pred             ccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHH
Q psy7187          74 QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGE  153 (214)
Q Consensus        74 ~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~  153 (214)
                         -+|.      |+.+.+.. ...+.        +            ..-..-....+|.|+.-+|. ..-.+++|..+
T Consensus       435 ---ilPA------Dl~i~lqp-~~v~~--------l------------e~~tps~l~q~rcyltt~r~-l~~nIsee~t~  483 (543)
T KOG2545|consen  435 ---ILPA------DLGIRLQP-DSVDT--------L------------EFPTPSDLLQFRCYLTTMRN-LRANISEEMTD  483 (543)
T ss_pred             ---cCcc------cccccCCC-CCCCc--------c------------ccCChhHHHHHHHHHHHHHh-hccCccHHHHH
Confidence               1222      11111110 00000        0            00011123456778877776 35578999999


Q ss_pred             HHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         154 KLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       154 ~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +|..-|+.+|+..+.         ...-.+..++-+|+..+.-.|++++..+|-..|.+|
T Consensus       484 ~iq~dfV~mRq~n~~---------snaddLs~lLv~sRlls~S~G~ttlsre~wq~a~el  534 (543)
T KOG2545|consen  484 YIQSDFVSMRQYNKE---------SNADDLSLLLVCSRLLSKSFGRTTLSREDWQAAREL  534 (543)
T ss_pred             HHHHHHHHHHhhCcc---------cchhHHHHHHHHHHHHHHhhccchhhHHHHHHHHHH
Confidence            999999999987653         235668899999999999999999999999998765

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.86  E-value=0.018  Score=49.21  Aligned_cols=52  Identities=15%  Similarity=0.062  Sum_probs=37.7

Q ss_pred             CCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         147 LTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       147 ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +++++.+++.......  .            =.+|....+++.|.-.|..+.+..|+.+||..|+.
T Consensus       221 ~~~~~l~~i~~~~~~~--~------------Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~  272 (365)
T TIGR02928       221 LDDGVIPLCAALAAQE--H------------GDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE  272 (365)
T ss_pred             CChhHHHHHHHHHHHh--c------------CCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            6677777776654321  0            14677777888888888888889999999998864

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.78  E-value=0.025  Score=53.62  Aligned_cols=55  Identities=25%  Similarity=0.410  Sum_probs=43.7

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      .|++|||++.|+.+.+++|+..||+             .|..+.+|.++|+..            ++.++|.||+ ..+.
T Consensus       632 KVvIIDEaD~Lt~~AQnALLk~lEe-------------p~~~~~FILi~N~~~------------kIi~tIrSRC-~~i~  685 (846)
T PRK04132        632 KIIFLDEADALTQDAQQALRRTMEM-------------FSSNVRFILSCNYSS------------KIIEPIQSRC-AIFR  685 (846)
T ss_pred             EEEEEECcccCCHHHHHHHHHHhhC-------------CCCCeEEEEEeCChh------------hCchHHhhhc-eEEe
Confidence            5999999999999999999999996             133466777788753            2779999998 4444


Q ss_pred             e
Q psy7187          92 I   92 (214)
Q Consensus        92 ~   92 (214)
                      +
T Consensus       686 F  686 (846)
T PRK04132        686 F  686 (846)
T ss_pred             C
Confidence            4

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.74  E-value=0.0017  Score=64.60  Aligned_cols=78  Identities=21%  Similarity=0.323  Sum_probs=63.4

Q ss_pred             eccCCceEeeccCCCCCHHHHHHHHHhhhc-CeEEEEecceEEEEeCceEEEEeecCCC-CCCCCCcccccccCCCCCCC
Q psy7187           7 VLADGGVVCIDEFDKMREDDRVAIHEAMEQ-QTISIAKAGITTTLNSRCSVLAAANSVF-GRWDDTKGEQNIDFMPTILS   84 (214)
Q Consensus         7 ~la~~Gv~~iDE~~~~~~~~~~~L~e~me~-~~i~i~~~g~~~~lpa~~~viaa~Np~~-g~~~~~~~~~~~~l~~~lld   84 (214)
                      ++-+||-+.+||+|....++++.|-.++++ +...|..-..++...-+|.|.||.||+. |.       ....||.++++
T Consensus      1608 amr~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qgg-------GRKgLPkSF~n 1680 (4600)
T COG5271        1608 AMRDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGG-------GRKGLPKSFLN 1680 (4600)
T ss_pred             HhhcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCC-------CcccCCHHHhh
Confidence            456899999999999999999999999996 6677765556677777899999999992 21       22349999999


Q ss_pred             cccEEEE
Q psy7187          85 RFDMIFI   91 (214)
Q Consensus        85 RFDL~~~   91 (214)
                      ||-.++.
T Consensus      1681 RFsvV~~ 1687 (4600)
T COG5271        1681 RFSVVKM 1687 (4600)
T ss_pred             hhheEEe
Confidence            9976665

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.73  E-value=0.014  Score=55.37  Aligned_cols=133  Identities=18%  Similarity=0.194  Sum_probs=77.6

Q ss_pred             eEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEEe
Q psy7187          13 VVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFII   92 (214)
Q Consensus        13 v~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~~   92 (214)
                      |++|||++.+.....+.|+..++--..          -.++..|||.+|+..-.         ..|.+.+.+||..-.+.
T Consensus       872 IIILDEID~L~kK~QDVLYnLFR~~~~----------s~SKLiLIGISNdlDLp---------erLdPRLRSRLg~eeIv  932 (1164)
T PTZ00112        872 ILIIDEIDYLITKTQKVLFTLFDWPTK----------INSKLVLIAISNTMDLP---------ERLIPRCRSRLAFGRLV  932 (1164)
T ss_pred             EEEeehHhhhCccHHHHHHHHHHHhhc----------cCCeEEEEEecCchhcc---------hhhhhhhhhcccccccc
Confidence            799999999987767778877763110          13468899999975210         12556777777643333


Q ss_pred             cCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCC
Q psy7187          93 KDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEK  172 (214)
Q Consensus        93 ~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~  172 (214)
                      +.+.+.+   .+. .|+..+..                       .+    .-.+++++.+++.+....  ..       
T Consensus       933 F~PYTaE---QL~-dILk~RAe-----------------------~A----~gVLdDdAIELIArkVAq--~S-------  972 (1164)
T PTZ00112        933 FSPYKGD---EIE-KIIKERLE-----------------------NC----KEIIDHTAIQLCARKVAN--VS-------  972 (1164)
T ss_pred             CCCCCHH---HHH-HHHHHHHH-----------------------hC----CCCCCHHHHHHHHHhhhh--cC-------
Confidence            3333322   221 12222111                       11    124788888888774331  00       


Q ss_pred             ccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         173 KLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       173 ~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                       +    .+|...-++|.|-..+   ....|+++||.+|+.
T Consensus       973 -G----DARKALDILRrAgEik---egskVT~eHVrkAle 1004 (1164)
T PTZ00112        973 -G----DIRKALQICRKAFENK---RGQKIVPRDITEATN 1004 (1164)
T ss_pred             -C----HHHHHHHHHHHHHhhc---CCCccCHHHHHHHHH
Confidence             1    3555555666665543   456899999999974

>PLN03025 replication factor C subunit; Provisional

Probab=96.67  E-value=0.044  Score=46.25  Aligned_cols=52  Identities=25%  Similarity=0.300  Sum_probs=38.3

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      ...|++|||++.|+...+++|+..||.-             |..+.++-++|+..            ++.++|.+|.
T Consensus        99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~-------------~~~t~~il~~n~~~------------~i~~~L~SRc  150 (319)
T PLN03025         99 RHKIVILDEADSMTSGAQQALRRTMEIY-------------SNTTRFALACNTSS------------KIIEPIQSRC  150 (319)
T ss_pred             CeEEEEEechhhcCHHHHHHHHHHHhcc-------------cCCceEEEEeCCcc------------ccchhHHHhh
Confidence            4579999999999999999999999841             22233555666532            2667888997

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.63  E-value=0.023  Score=50.88  Aligned_cols=65  Identities=25%  Similarity=0.309  Sum_probs=39.2

Q ss_pred             CceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      .+|+||||++.+..              ..++.|+..|+.         ..  -.....||||+|+...           
T Consensus       148 p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~---------~~--~~~~v~vI~aTn~~~~-----------  205 (495)
T TIGR01241       148 PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDG---------FG--TNTGVIVIAATNRPDV-----------  205 (495)
T ss_pred             CCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhcc---------cc--CCCCeEEEEecCChhh-----------
Confidence            37999999988643              123344444431         10  0124788999998532           


Q ss_pred             cCCCCCCC--cccEEEEecCCCCcc
Q psy7187          77 DFMPTILS--RFDMIFIIKDEHDET   99 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~~~~~~~~   99 (214)
                       +.++++.  |||-.+.+. .++.+
T Consensus       206 -ld~al~r~gRfd~~i~i~-~Pd~~  228 (495)
T TIGR01241       206 -LDPALLRPGRFDRQVVVD-LPDIK  228 (495)
T ss_pred             -cCHHHhcCCcceEEEEcC-CCCHH
Confidence             6666764  999877664 34433

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

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.61  E-value=0.057  Score=46.47  Aligned_cols=28  Identities=21%  Similarity=0.221  Sum_probs=24.9

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++..|++|||++.|+....++|+..||+
T Consensus       118 ~~~kviIIDEa~~l~~~a~naLLk~lEe  145 (363)
T PRK14961        118 SRFKVYLIDEVHMLSRHSFNALLKTLEE  145 (363)
T ss_pred             CCceEEEEEChhhcCHHHHHHHHHHHhc
Confidence            3456999999999999999999999996

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=96.60  E-value=0.029  Score=47.92  Aligned_cols=59  Identities=20%  Similarity=0.307  Sum_probs=51.3

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANS   62 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np   62 (214)
                      .+|.+-+||||-+++||+.+|++..+..|+..+..|+..-  -|...+.-++.-||+|+--
T Consensus       285 k~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRR--VGee~Ev~vdVRVIcatq~  343 (511)
T COG3283         285 KKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRR--VGEDHEVHVDVRVICATQV  343 (511)
T ss_pred             ccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceee--cCCcceEEEEEEEEecccc
Confidence            4688999999999999999999999999999999999764  6766777778888888754

>CHL00176 ftsH cell division protein; Validated

Probab=96.58  E-value=0.022  Score=52.63  Aligned_cols=60  Identities=27%  Similarity=0.315  Sum_probs=36.8

Q ss_pred             ceEeeccCCCCC-----------HH---HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKMR-----------ED---DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~~-----------~~---~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      .|+||||++.+.           +.   .+..|+..|+.         ..  -+....||||+|....            
T Consensus       277 ~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg---------~~--~~~~ViVIaaTN~~~~------------  333 (638)
T CHL00176        277 CIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDG---------FK--GNKGVIVIAATNRVDI------------  333 (638)
T ss_pred             cEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhcc---------cc--CCCCeeEEEecCchHh------------
Confidence            589999998873           12   33444444431         10  1235788999988532            


Q ss_pred             CCCCCC--CcccEEEEecC
Q psy7187          78 FMPTIL--SRFDMIFIIKD   94 (214)
Q Consensus        78 l~~~ll--dRFDL~~~~~~   94 (214)
                      +.++++  .|||..+.+..
T Consensus       334 LD~ALlRpGRFd~~I~v~l  352 (638)
T CHL00176        334 LDAALLRPGRFDRQITVSL  352 (638)
T ss_pred             hhhhhhccccCceEEEECC
Confidence            556666  48998877643

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.57  E-value=0.054  Score=49.08  Aligned_cols=58  Identities=24%  Similarity=0.255  Sum_probs=42.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCce-EEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRC-SVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~-~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ++..|++|||+++|+.+..++|+..||+.             |..+ .|++|.++.             .++..++||. 
T Consensus       118 g~~kViIIDEa~~ls~~a~naLLK~LEep-------------p~~v~fIL~Ttd~~-------------kil~tI~SRc-  170 (546)
T PRK14957        118 GRYKVYLIDEVHMLSKQSFNALLKTLEEP-------------PEYVKFILATTDYH-------------KIPVTILSRC-  170 (546)
T ss_pred             CCcEEEEEechhhccHHHHHHHHHHHhcC-------------CCCceEEEEECChh-------------hhhhhHHHhe-
Confidence            46789999999999999999999999973             2223 344555542             2666799999 


Q ss_pred             EEEEec
Q psy7187          88 MIFIIK   93 (214)
Q Consensus        88 L~~~~~   93 (214)
                      .+|.+.
T Consensus       171 ~~~~f~  176 (546)
T PRK14957        171 IQLHLK  176 (546)
T ss_pred             eeEEeC
Confidence            555553

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.57  E-value=0.12  Score=43.47  Aligned_cols=28  Identities=36%  Similarity=0.519  Sum_probs=25.1

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++.++++|||++.++++..+.|+..|++
T Consensus       124 ~~~~vlilDe~~~l~~~~~~~L~~~le~  151 (337)
T PRK12402        124 ADYKTILLDNAEALREDAQQALRRIMEQ  151 (337)
T ss_pred             CCCcEEEEeCcccCCHHHHHHHHHHHHh
Confidence            5678999999999999989999999985

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.52  E-value=0.027  Score=50.39  Aligned_cols=35  Identities=14%  Similarity=0.030  Sum_probs=24.4

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.|.+.++.+++-|...|.... ..++.+|+..|+.
T Consensus       427 GfSGAdI~~lv~eA~~~A~~~~-~~lt~~dl~~a~~  461 (489)
T CHL00195        427 KFSGAEIEQSIIEAMYIAFYEK-REFTTDDILLALK  461 (489)
T ss_pred             CCCHHHHHHHHHHHHHHHHHcC-CCcCHHHHHHHHH
Confidence            5567777777777766666555 4578888888864

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

Probab=96.51  E-value=0.047  Score=47.63  Aligned_cols=37  Identities=14%  Similarity=0.100  Sum_probs=31.7

Q ss_pred             cccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         176 IPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       176 ~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+.|.+.+..+.+-|.-.|--+.+..|+.+|+.+|+.
T Consensus       348 ~g~sgaDI~~l~~eA~~~A~r~~~~~i~~~df~~A~~  384 (398)
T PTZ00454        348 EKISAADIAAICQEAGMQAVRKNRYVILPKDFEKGYK  384 (398)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            3567888889999888888888889999999999975

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.49  E-value=0.094  Score=47.41  Aligned_cols=57  Identities=26%  Similarity=0.274  Sum_probs=41.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEE-EEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSV-LAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~v-iaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +...|++|||.+.|+.+..++|+..||+-             |..+.+ +++.+|  .           .+++++.||. 
T Consensus       116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEp-------------p~~t~FIL~ttd~--~-----------kL~~tI~SRc-  168 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEAFNALLKTLEEP-------------PSYVKFILATTDP--L-----------KLPATILSRT-  168 (535)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHHhhc-------------CCceEEEEEECCh--h-----------hCchHHHhhc-
Confidence            56789999999999999999999999961             333333 344444  1           3888999997 


Q ss_pred             EEEEe
Q psy7187          88 MIFII   92 (214)
Q Consensus        88 L~~~~   92 (214)
                      ..|.+
T Consensus       169 ~~~~F  173 (535)
T PRK08451        169 QHFRF  173 (535)
T ss_pred             eeEEc
Confidence            44444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.49  E-value=0.11  Score=43.46  Aligned_cols=28  Identities=29%  Similarity=0.430  Sum_probs=24.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...+++|||++.++.+.+..|+..|++
T Consensus       101 ~~~~vviiDe~~~l~~~~~~~L~~~le~  128 (319)
T PRK00440        101 APFKIIFLDEADNLTSDAQQALRRTMEM  128 (319)
T ss_pred             CCceEEEEeCcccCCHHHHHHHHHHHhc
Confidence            4467999999999999888899998875

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.47  E-value=0.031  Score=51.80  Aligned_cols=28  Identities=21%  Similarity=0.240  Sum_probs=25.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+....+.|+..||+
T Consensus       118 gk~KVIIIDEad~Ls~~A~NALLKtLEE  145 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSAFNAMLKTLEE  145 (709)
T ss_pred             CCcEEEEEECccccCHHHHHHHHHHHHh
Confidence            4568999999999999999999999996

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.43  E-value=0.055  Score=48.16  Aligned_cols=50  Identities=26%  Similarity=0.298  Sum_probs=38.0

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEE-EEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSV-LAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~v-iaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      -|++|||++.|+.+..++|+..||+-             |..+.+ ++|.+|.             +|++.++||+-
T Consensus       123 KV~IIDEah~Ls~~A~NALLKtLEEP-------------p~~viFILaTte~~-------------kI~~TI~SRCq  173 (484)
T PRK14956        123 KVYIIDEVHMLTDQSFNALLKTLEEP-------------PAHIVFILATTEFH-------------KIPETILSRCQ  173 (484)
T ss_pred             EEEEEechhhcCHHHHHHHHHHhhcC-------------CCceEEEeecCChh-------------hccHHHHhhhh
Confidence            49999999999999999999999862             223344 4444442             38899999983

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.38  E-value=0.099  Score=47.02  Aligned_cols=58  Identities=19%  Similarity=0.241  Sum_probs=40.8

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +...|++|||++.++....++|+..||+.             |..+.+|.+++-.            -+++..+.+|+ .
T Consensus       127 ~~~KVvIIDEa~~Ls~~a~naLLk~LEep-------------p~~~vfI~aTte~------------~kI~~tI~SRc-~  180 (507)
T PRK06645        127 GKHKIFIIDEVHMLSKGAFNALLKTLEEP-------------PPHIIFIFATTEV------------QKIPATIISRC-Q  180 (507)
T ss_pred             CCcEEEEEEChhhcCHHHHHHHHHHHhhc-------------CCCEEEEEEeCCh------------HHhhHHHHhcc-e
Confidence            56789999999999999999999999852             3344444444221            12777888888 4


Q ss_pred             EEEe
Q psy7187          89 IFII   92 (214)
Q Consensus        89 ~~~~   92 (214)
                      .|.+
T Consensus       181 ~~ef  184 (507)
T PRK06645        181 RYDL  184 (507)
T ss_pred             EEEc
Confidence            4443

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.36  E-value=0.041  Score=44.39  Aligned_cols=50  Identities=22%  Similarity=0.208  Sum_probs=34.2

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .+++++.++|.+.+.                 =+.|.++.++..-. .+.+.....||.+.+++++.|
T Consensus       186 ~l~~~v~~~L~~~~~-----------------~d~r~l~~~l~~l~-~~~l~~~~~it~~~~k~~l~~  235 (235)
T PRK08084        186 ELPEDVGRFLLKRLD-----------------REMRTLFMTLDQLD-RASITAQRKLTIPFVKEILKL  235 (235)
T ss_pred             CCCHHHHHHHHHhhc-----------------CCHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHHcC
Confidence            589999999976542                 25677766665532 344544456999999998764

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.33  E-value=0.049  Score=51.80  Aligned_cols=58  Identities=24%  Similarity=0.308  Sum_probs=41.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceE-EEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCS-VLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~-viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +...|++|||+++|+.+..++|+..||+-             |..+. |+++.+|.             +|...|+||. 
T Consensus       118 gk~KViIIDEAh~LT~eAqNALLKtLEEP-------------P~~vrFILaTTe~~-------------kLl~TIlSRC-  170 (944)
T PRK14949        118 GRFKVYLIDEVHMLSRSSFNALLKTLEEP-------------PEHVKFLLATTDPQ-------------KLPVTVLSRC-  170 (944)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhcc-------------CCCeEEEEECCCch-------------hchHHHHHhh-
Confidence            35579999999999999999999999962             22222 33344442             2778899998 


Q ss_pred             EEEEec
Q psy7187          88 MIFIIK   93 (214)
Q Consensus        88 L~~~~~   93 (214)
                      .+|.+.
T Consensus       171 q~f~fk  176 (944)
T PRK14949        171 LQFNLK  176 (944)
T ss_pred             eEEeCC
Confidence            555443

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.33  E-value=0.012  Score=48.73  Aligned_cols=90  Identities=19%  Similarity=0.214  Sum_probs=54.6

Q ss_pred             ceEeeccCCCCCHH------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCc
Q psy7187          12 GVVCIDEFDKMRED------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSR   85 (214)
Q Consensus        12 Gv~~iDE~~~~~~~------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldR   85 (214)
                      -|+|||++|.-..+      ..+.|+|.|+.|-.--.+ .....-=-+++++|||||..|+.         .+|+.++.+
T Consensus       102 lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~-~~~~~~i~~i~~vaa~~p~~Gr~---------~is~R~~r~  171 (272)
T PF12775_consen  102 LVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRK-KLEWKSIEDIQFVAAMNPTGGRN---------PISPRFLRH  171 (272)
T ss_dssp             EEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTT-TTEEEEECSEEEEEEESSTTT-----------SHHHHHHTT
T ss_pred             EEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCC-CcEEEEEeeeEEEEecCCCCCCC---------CCChHHhhh
Confidence            48999999985533      578999999987655322 22333334699999999976652         388899999


Q ss_pred             ccEEEEecCCCCccccHHHHHHHHHHHH
Q psy7187          86 FDMIFIIKDEHDETRDITLAKHIMKVHM  113 (214)
Q Consensus        86 FDL~~~~~~~~~~~~d~~ia~~il~~~~  113 (214)
                      |-++. +. .++.+.-..|-..++..+.
T Consensus       172 f~i~~-~~-~p~~~sl~~If~~il~~~l  197 (272)
T PF12775_consen  172 FNILN-IP-YPSDESLNTIFSSILQSHL  197 (272)
T ss_dssp             EEEEE------TCCHHHHHHHHHHHHHT
T ss_pred             eEEEE-ec-CCChHHHHHHHHHHHhhhc
Confidence            95433 33 3344444455555665553

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

Probab=96.33  E-value=0.0047  Score=54.29  Aligned_cols=75  Identities=15%  Similarity=0.094  Sum_probs=53.6

Q ss_pred             CCceEeeccCCCCCHH-HHHHHHHhhhcC------eEEEE--e-cceEEEEeCceEEEEeecCCCCCCCCCcccccccCC
Q psy7187          10 DGGVVCIDEFDKMRED-DRVAIHEAMEQQ------TISIA--K-AGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFM   79 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~-~~~~L~e~me~~------~i~i~--~-~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~   79 (214)
                      ++.|++|||+|+.+.+ +...+++.||.+      .+.+.  . .+....+|.++.||||||.....        -..+.
T Consensus       272 ~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs--------~~~lD  343 (459)
T PRK11331        272 KKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMNTADRS--------LAVVD  343 (459)
T ss_pred             CCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCCCeEEEEecCccccc--------hhhcc
Confidence            4579999999999854 567888889864      23332  2 23457899999999999997321        11378


Q ss_pred             CCCCCcccEEEEe
Q psy7187          80 PTILSRFDMIFII   92 (214)
Q Consensus        80 ~~lldRFDL~~~~   92 (214)
                      .+|+.||..+-..
T Consensus       344 ~AlrRRF~fi~i~  356 (459)
T PRK11331        344 YALRRRFSFIDIE  356 (459)
T ss_pred             HHHHhhhheEEec
Confidence            8999999754444

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=96.31  E-value=0.001  Score=55.17  Aligned_cols=59  Identities=22%  Similarity=0.409  Sum_probs=49.9

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANS   62 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np   62 (214)
                      .+|.|--||||.+|+||+.++-.+.+.+|+.++|+....-  -|......++|++||-+--
T Consensus       274 r~gllrsadggmlfldeigelgadeqamllkaieekrf~p--fgsdr~v~sdfqliagtvr  332 (531)
T COG4650         274 REGLLRSADGGMLFLDEIGELGADEQAMLLKAIEEKRFYP--FGSDRQVSSDFQLIAGTVR  332 (531)
T ss_pred             hhhhhccCCCceEehHhhhhcCccHHHHHHHHHHhhccCC--CCCccccccchHHhhhhHH
Confidence            3688999999999999999999999999999999877654  4556667788999987644

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.31  E-value=0.051  Score=48.91  Aligned_cols=28  Identities=21%  Similarity=0.199  Sum_probs=25.3

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+.+..++|+..||+
T Consensus       118 ~~~kV~iIDE~~~ls~~a~naLLk~LEe  145 (509)
T PRK14958        118 GRFKVYLIDEVHMLSGHSFNALLKTLEE  145 (509)
T ss_pred             CCcEEEEEEChHhcCHHHHHHHHHHHhc
Confidence            3457999999999999999999999996

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

Probab=96.23  E-value=0.016  Score=54.41  Aligned_cols=124  Identities=11%  Similarity=0.100  Sum_probs=74.0

Q ss_pred             cCCceEeeccCCCC---------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCC
Q psy7187           9 ADGGVVCIDEFDKM---------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFM   79 (214)
Q Consensus         9 a~~Gv~~iDE~~~~---------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~   79 (214)
                      ..+||+||||++.+         ..+..+.|...++.|.               ..+|||+|+.+-       ...+...
T Consensus       277 ~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~---------------i~vIgATt~~E~-------~~~~~~D  334 (758)
T PRK11034        277 DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGK---------------IRVIGSTTYQEF-------SNIFEKD  334 (758)
T ss_pred             cCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCC---------------eEEEecCChHHH-------HHHhhcc
Confidence            45789999999976         1233444666665433               667889888521       0123477


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCC-CCCHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGP-RLTHEAGEKLKNR  158 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p-~ls~ea~~~i~~~  158 (214)
                      ++|..||+- +.+ +.++.+....|-..+......       ..+-.++.+-++..+.++..++.. .+++.|.+++...
T Consensus       335 ~AL~rRFq~-I~v-~ePs~~~~~~IL~~~~~~ye~-------~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea  405 (758)
T PRK11034        335 RALARRFQK-IDI-TEPSIEETVQIINGLKPKYEA-------HHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEA  405 (758)
T ss_pred             HHHHhhCcE-EEe-CCCCHHHHHHHHHHHHHHhhh-------ccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHH
Confidence            899999984 434 344444443333332222211       233456777777777777776542 5677888888877


Q ss_pred             HHHHh
Q psy7187         159 YVLMR  163 (214)
Q Consensus       159 y~~~r  163 (214)
                      ....|
T Consensus       406 ~a~~~  410 (758)
T PRK11034        406 GARAR  410 (758)
T ss_pred             HHhhc
Confidence            65443

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.21  E-value=0.024  Score=52.55  Aligned_cols=35  Identities=14%  Similarity=0.005  Sum_probs=24.5

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      +.|.+.+..+++-|.-+|.-..++.|+.+|+.+|+
T Consensus       355 G~sgadl~~l~~eAa~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        355 GFSGADLANLVNEAALFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            45667777777777666666677777777777765

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.17  E-value=0.0018  Score=54.97  Aligned_cols=77  Identities=13%  Similarity=0.182  Sum_probs=60.8

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCCCcccccccCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~~~~~~~~~l~~~   81 (214)
                      -|++..|++|++=+=|+-+.+.+.+..|+.+.++|.+.+.+.  ...+|.+..|||.+||. +..|..+      +--.+
T Consensus       226 ~G~l~~aNrGi~ef~E~~K~~~~~L~~LL~~tqEg~ik~~~~--~~~i~~D~liiAhsNe~E~~~f~~~------~~~eA  297 (358)
T PF08298_consen  226 SGELNRANRGIMEFVEMLKAPIEFLHPLLTATQEGNIKVDED--FGMIPFDELIIAHSNEEEYNKFKNN------KNNEA  297 (358)
T ss_pred             ccHHHHhhchhHHHHHHhcCcHHHHHHHhcchhcCceecCCc--ccccccceeEEecCCHHHHHHHhcc------ccchh
Confidence            389999999999888999999999999999999999998322  23468899999999997 3333211      12378


Q ss_pred             CCCccc
Q psy7187          82 ILSRFD   87 (214)
Q Consensus        82 lldRFD   87 (214)
                      |.||+-
T Consensus       298 f~DRi~  303 (358)
T PF08298_consen  298 FKDRIE  303 (358)
T ss_pred             hhhheE
Confidence            999983

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>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=96.06  E-value=0.0033  Score=45.19  Aligned_cols=60  Identities=32%  Similarity=0.375  Sum_probs=47.2

Q ss_pred             CceEeeccCCCCCHHH-----------HHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCC
Q psy7187          11 GGVVCIDEFDKMREDD-----------RVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFM   79 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~-----------~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~   79 (214)
                      .+|++|||++.+-...           .+.|...|+...-.          ..++.||+++|-...            ++
T Consensus        59 ~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~----------~~~~~vI~ttn~~~~------------i~  116 (132)
T PF00004_consen   59 PCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSK----------NSRVIVIATTNSPDK------------ID  116 (132)
T ss_dssp             SEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTT----------SSSEEEEEEESSGGG------------SC
T ss_pred             ceeeeeccchhcccccccccccccccccceeeecccccccc----------cccceeEEeeCChhh------------CC
Confidence            5899999999998886           78888888853311          446899999988432            88


Q ss_pred             CCCC-CcccEEEEe
Q psy7187          80 PTIL-SRFDMIFII   92 (214)
Q Consensus        80 ~~ll-dRFDL~~~~   92 (214)
                      ++++ +|||-.+.+
T Consensus       117 ~~l~~~rf~~~i~~  130 (132)
T PF00004_consen  117 PALLRSRFDRRIEF  130 (132)
T ss_dssp             HHHHSTTSEEEEEE
T ss_pred             HhHHhCCCcEEEEc
Confidence            8999 999988765

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 ....

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=95.98  E-value=0.16  Score=46.92  Aligned_cols=58  Identities=26%  Similarity=0.279  Sum_probs=42.4

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      ...|++|||++.|+....++|+..||+-             |.. ..|++|.+|.             .|+..|+||+ +
T Consensus       119 ~~KV~IIDEah~Ls~~a~NALLKtLEEP-------------p~~v~FIL~Tt~~~-------------kLl~TI~SRC-~  171 (647)
T PRK07994        119 RFKVYLIDEVHMLSRHSFNALLKTLEEP-------------PEHVKFLLATTDPQ-------------KLPVTILSRC-L  171 (647)
T ss_pred             CCEEEEEechHhCCHHHHHHHHHHHHcC-------------CCCeEEEEecCCcc-------------ccchHHHhhh-e
Confidence            4569999999999999999999999972             222 2344455553             3888999997 5


Q ss_pred             EEEecC
Q psy7187          89 IFIIKD   94 (214)
Q Consensus        89 ~~~~~~   94 (214)
                      .|.+..
T Consensus       172 ~~~f~~  177 (647)
T PRK07994        172 QFHLKA  177 (647)
T ss_pred             EeeCCC
Confidence            565543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.95  E-value=0.025  Score=53.94  Aligned_cols=122  Identities=14%  Similarity=0.126  Sum_probs=73.3

Q ss_pred             CceEeeccCCCCCH--------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          11 GGVVCIDEFDKMRE--------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +.|+||||+..+..        +.-+.|..+|+.|.               ..+|||+++.+-+       .-+.+.++|
T Consensus       281 ~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~---------------l~~IgaTT~~e~~-------~~~~~d~AL  338 (852)
T TIGR03345       281 PIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGE---------------LRTIAATTWAEYK-------KYFEKDPAL  338 (852)
T ss_pred             CeEEEEeChHHhccCCCccccccHHHHhhHHhhCCC---------------eEEEEecCHHHHh-------hhhhccHHH
Confidence            56999999999853        22235777777654               5678888885210       123478999


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYVL  161 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~~  161 (214)
                      .+||.. +.+. .++.+....    |+.......+.   ..+-.++.+.+...+.++..|+. ..+++.|.++|-.....
T Consensus       339 ~rRf~~-i~v~-eps~~~~~~----iL~~~~~~~e~---~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlldea~a~  409 (852)
T TIGR03345       339 TRRFQV-VKVE-EPDEETAIR----MLRGLAPVLEK---HHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDTACAR  409 (852)
T ss_pred             HHhCeE-EEeC-CCCHHHHHH----HHHHHHHhhhh---cCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHHHHHH
Confidence            999964 4443 334333333    33322221111   12234677888888888877653 46778888888776544


Q ss_pred             Hh
Q psy7187         162 MR  163 (214)
Q Consensus       162 ~r  163 (214)
                      .|
T Consensus       410 ~~  411 (852)
T TIGR03345       410 VA  411 (852)
T ss_pred             HH
Confidence            33

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

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.94  E-value=0.095  Score=48.14  Aligned_cols=28  Identities=21%  Similarity=0.236  Sum_probs=25.6

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+.+..++|+..||+
T Consensus       118 g~~kVIIIDEad~Lt~~a~naLLk~LEE  145 (624)
T PRK14959        118 GRYKVFIIDEAHMLTREAFNALLKTLEE  145 (624)
T ss_pred             CCceEEEEEChHhCCHHHHHHHHHHhhc
Confidence            4567999999999999999999999997

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.90  E-value=0.14  Score=47.41  Aligned_cols=27  Identities=22%  Similarity=0.209  Sum_probs=24.7

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ...|++|||++.|+....++|+..||+
T Consensus       118 k~KV~IIDEVh~LS~~A~NALLKtLEE  144 (702)
T PRK14960        118 RFKVYLIDEVHMLSTHSFNALLKTLEE  144 (702)
T ss_pred             CcEEEEEechHhcCHHHHHHHHHHHhc
Confidence            456999999999999999999999996

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.89  E-value=0.17  Score=46.57  Aligned_cols=58  Identities=24%  Similarity=0.268  Sum_probs=41.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCce-EEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRC-SVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~-~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +...|++|||++.|+....++|+..||+-             |..+ .|++|.+|.             +++..++||+ 
T Consensus       123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEP-------------P~~~~fIL~Ttd~~-------------kil~TIlSRc-  175 (618)
T PRK14951        123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEP-------------PEYLKFVLATTDPQ-------------KVPVTVLSRC-  175 (618)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHhcccC-------------CCCeEEEEEECCch-------------hhhHHHHHhc-
Confidence            34579999999999999999999999862             2233 344555553             2566789998 


Q ss_pred             EEEEec
Q psy7187          88 MIFIIK   93 (214)
Q Consensus        88 L~~~~~   93 (214)
                      ++|.+.
T Consensus       176 ~~~~f~  181 (618)
T PRK14951        176 LQFNLR  181 (618)
T ss_pred             eeeecC
Confidence            555553

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.89  E-value=0.12  Score=46.20  Aligned_cols=28  Identities=21%  Similarity=0.233  Sum_probs=25.9

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||.+.|+.+..++|+..||+
T Consensus       115 ~~~KVvIIDEah~Ls~~A~NaLLK~LEe  142 (491)
T PRK14964        115 SKFKVYIIDEVHMLSNSAFNALLKTLEE  142 (491)
T ss_pred             CCceEEEEeChHhCCHHHHHHHHHHHhC
Confidence            5678999999999999999999999997

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

Probab=95.86  E-value=0.035  Score=47.61  Aligned_cols=64  Identities=23%  Similarity=0.252  Sum_probs=41.1

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC----CCCCCCCcccccccCCCCCCCccc
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV----FGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~----~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      |||||||.+.++-+.-+.|..+||+.-              -..||-|+|-.    .|. |-   ..-..+|..||||+ 
T Consensus       280 GVLFIDEvHmLDiEcFsfLnralEs~~--------------sPiiIlATNRg~~~irGt-~~---~sphGiP~DlLDRl-  340 (398)
T PF06068_consen  280 GVLFIDEVHMLDIECFSFLNRALESEL--------------SPIIILATNRGITKIRGT-DI---ISPHGIPLDLLDRL-  340 (398)
T ss_dssp             -EEEEESGGGSBHHHHHHHHHHHTSTT----------------EEEEEES-SEEE-BTT-S----EEETT--HHHHTTE-
T ss_pred             ceEEecchhhccHHHHHHHHHHhcCCC--------------CcEEEEecCceeeeccCc-cC---cCCCCCCcchHhhc-
Confidence            899999999999999999999999632              23455566642    232 00   22345888999998 


Q ss_pred             EEEEecC
Q psy7187          88 MIFIIKD   94 (214)
Q Consensus        88 L~~~~~~   94 (214)
                      |++.+..
T Consensus       341 lII~t~p  347 (398)
T PF06068_consen  341 LIIRTKP  347 (398)
T ss_dssp             EEEEE--
T ss_pred             EEEECCC
Confidence            7776643

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

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.82  E-value=0.2  Score=45.69  Aligned_cols=54  Identities=26%  Similarity=0.263  Sum_probs=40.4

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCce-EEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRC-SVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~-~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+...|++|||++.|.....++|+..||+-             |..+ .|++|.+|.             .+++.+.||+
T Consensus       117 ~~~~kViIIDE~~~Lt~~a~naLLKtLEep-------------p~~~ifIlatt~~~-------------ki~~tI~SRc  170 (559)
T PRK05563        117 EAKYKVYIIDEVHMLSTGAFNALLKTLEEP-------------PAHVIFILATTEPH-------------KIPATILSRC  170 (559)
T ss_pred             cCCeEEEEEECcccCCHHHHHHHHHHhcCC-------------CCCeEEEEEeCChh-------------hCcHHHHhHh
Confidence            456789999999999999999999999863             2233 344555552             2778888998


Q ss_pred             c
Q psy7187          87 D   87 (214)
Q Consensus        87 D   87 (214)
                      .
T Consensus       171 ~  171 (559)
T PRK05563        171 Q  171 (559)
T ss_pred             e
Confidence            4

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

Probab=95.79  E-value=0.081  Score=46.70  Aligned_cols=36  Identities=14%  Similarity=0.068  Sum_probs=30.1

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ++|...+..+.+-|.-.|--+.+..|+.+|+..|++
T Consensus       387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~  422 (438)
T PTZ00361        387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKE  422 (438)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHH
Confidence            457777888888888888888899999999999975

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.71  E-value=0.07  Score=49.20  Aligned_cols=57  Identities=25%  Similarity=0.311  Sum_probs=41.2

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceE-EEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCS-VLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~-viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      ...|++|||++.|+....++|+..||+-             |..+. |++|.+|.             +|+..|+||+ .
T Consensus       124 r~KViIIDEah~Ls~~AaNALLKTLEEP-------------P~~v~FILaTtep~-------------kLlpTIrSRC-q  176 (700)
T PRK12323        124 RFKVYMIDEVHMLTNHAFNAMLKTLEEP-------------PEHVKFILATTDPQ-------------KIPVTVLSRC-L  176 (700)
T ss_pred             CceEEEEEChHhcCHHHHHHHHHhhccC-------------CCCceEEEEeCChH-------------hhhhHHHHHH-H
Confidence            4569999999999999999999999971             22333 34444442             3778899998 5


Q ss_pred             EEEec
Q psy7187          89 IFIIK   93 (214)
Q Consensus        89 ~~~~~   93 (214)
                      .|.+.
T Consensus       177 ~f~f~  181 (700)
T PRK12323        177 QFNLK  181 (700)
T ss_pred             hcccC
Confidence            55443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=95.68  E-value=0.07  Score=42.27  Aligned_cols=49  Identities=16%  Similarity=0.097  Sum_probs=37.3

Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      ..+++++.++|.+.+                 +=++|.+..++.-+.+.|.-.++ .|+.+-+++++
T Consensus       177 ~~~~~~~l~~L~~~~-----------------~gn~r~L~~~l~~~~~~~~~~~~-~i~~~~~~~~~  225 (226)
T TIGR03420       177 LQLPDEVADYLLRHG-----------------SRDMGSLMALLDALDRASLAAKR-KITIPFVKEVL  225 (226)
T ss_pred             CCCCHHHHHHHHHhc-----------------cCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHh
Confidence            358889888887743                 12688899998888887766664 69999998875

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.

>PRK06620 hypothetical protein; Validated

Probab=95.57  E-value=0.22  Score=39.60  Aligned_cols=48  Identities=15%  Similarity=0.021  Sum_probs=33.9

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      .+++++.++|.+...                 =+.|.++.++..-.+.|.... ..||.+.+++++
T Consensus       166 ~l~~ev~~~L~~~~~-----------------~d~r~l~~~l~~l~~~~~~~~-~~it~~~~~~~l  213 (214)
T PRK06620        166 TISRQIIDFLLVNLP-----------------REYSKIIEILENINYFALISK-RKITISLVKEVL  213 (214)
T ss_pred             CCCHHHHHHHHHHcc-----------------CCHHHHHHHHHHHHHHHHHcC-CCCCHHHHHHHh
Confidence            589999999977542                 256777776666555555555 469999998875

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.47  E-value=0.21  Score=42.45  Aligned_cols=28  Identities=21%  Similarity=0.243  Sum_probs=25.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +++.|++|||++.++....+.|+..||+
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~  143 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEE  143 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhC
Confidence            5677999999999999999999999976

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

>PHA01747 putative ATP-dependent protease

Probab=95.45  E-value=0.03  Score=47.91  Aligned_cols=87  Identities=15%  Similarity=0.214  Sum_probs=57.4

Q ss_pred             cceeeccCCceEeeccCCCCC----HHHHHHHHHhhhcCeEEEEecceEE--EEeCceEEEEeecCCC---CCCCCCc--
Q psy7187           3 GGAMVLADGGVVCIDEFDKMR----EDDRVAIHEAMEQQTISIAKAGITT--TLNSRCSVLAAANSVF---GRWDDTK--   71 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~----~~~~~~L~e~me~~~i~i~~~g~~~--~lpa~~~viaa~Np~~---g~~~~~~--   71 (214)
                      .|++-+.|  ++++||+..+.    ++..+.|..=||+|..+-.+.+.+.  +..+.++++-..|+..   +.|+...  
T Consensus       237 ~GLVg~~D--~VaFDEVa~i~f~~~kdiv~IMKdYMesG~FsRG~~~~ss~~sI~a~asiVf~GNin~~~l~~~~~~~~l  314 (425)
T PHA01747        237 LGLVFLSN--GLIFDEIQTWKDSNMRAINSTLSTGMENCVWTRGAGTESDAATIVRCIPIIFAGNPDSSTLDTYQTPNYI  314 (425)
T ss_pred             eeEEeecc--EEEEEccccccCCCHHHHHHHHHHHhhcceeecCCCCcccchhhccceeEEEecCCCCccccccccchhH
Confidence            45555544  58999999965    3577788888999998876553333  7788899999999872   2232211  


Q ss_pred             -c--cc--cc-cCCCCCCCcccEEEE
Q psy7187          72 -G--EQ--NI-DFMPTILSRFDMIFI   91 (214)
Q Consensus        72 -~--~~--~~-~l~~~lldRFDL~~~   91 (214)
                       .  .+  -. .+..+|||||.+.-+
T Consensus       315 ~~~Lp~~~~~r~~~sA~LDRIhi~g~  340 (425)
T PHA01747        315 KNYLVSYELFQSLTKAILDRIAIIIV  340 (425)
T ss_pred             HHhcchhhhhcccchHHhhhhhhccc
Confidence             0  11  11 136799999984443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.43  E-value=0.35  Score=44.33  Aligned_cols=58  Identities=17%  Similarity=0.201  Sum_probs=42.0

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+...|++|||.+.|+.+..++|+..||+-             |.. +.|+++.+|.             ++.+.|.||.
T Consensus       116 ~~~~KVvIIDEah~Lt~~A~NALLK~LEEp-------------p~~~~fIL~tte~~-------------kll~TI~SRc  169 (584)
T PRK14952        116 QSRYRIFIVDEAHMVTTAGFNALLKIVEEP-------------PEHLIFIFATTEPE-------------KVLPTIRSRT  169 (584)
T ss_pred             cCCceEEEEECCCcCCHHHHHHHHHHHhcC-------------CCCeEEEEEeCChH-------------hhHHHHHHhc
Confidence            356789999999999999999999999971             222 3344555552             3778888886


Q ss_pred             cEEEEe
Q psy7187          87 DMIFII   92 (214)
Q Consensus        87 DL~~~~   92 (214)
                       ..|.+
T Consensus       170 -~~~~F  174 (584)
T PRK14952        170 -HHYPF  174 (584)
T ss_pred             -eEEEe
Confidence             44444

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=95.30  E-value=0.31  Score=38.82  Aligned_cols=134  Identities=14%  Similarity=0.243  Sum_probs=77.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc--
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF--   86 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF--   86 (214)
                      .++++++|||++.++...+..|+..|+.-.    ..|       ...++.+++....         ...+...|.+||  
T Consensus        89 ~~~~~liiDdi~~l~~~~~~~L~~~~~~~~----~~~-------~~~vl~~~~~~~~---------~~~l~~~L~sr~~~  148 (227)
T PRK08903         89 PEAELYAVDDVERLDDAQQIALFNLFNRVR----AHG-------QGALLVAGPAAPL---------ALPLREDLRTRLGW  148 (227)
T ss_pred             ccCCEEEEeChhhcCchHHHHHHHHHHHHH----HcC-------CcEEEEeCCCCHH---------hCCCCHHHHHHHhc
Confidence            356899999999999888888988886411    011       1223333322111         112557778898  


Q ss_pred             cEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCC
Q psy7187          87 DMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGS  166 (214)
Q Consensus        87 DL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~  166 (214)
                      .+.+.+....+ ..+..    ++.                       ++   +++ ....+++++.++|.+.+       
T Consensus       149 ~~~i~l~pl~~-~~~~~----~l~-----------------------~~---~~~-~~v~l~~~al~~L~~~~-------  189 (227)
T PRK08903        149 GLVYELKPLSD-ADKIA----ALK-----------------------AA---AAE-RGLQLADEVPDYLLTHF-------  189 (227)
T ss_pred             CeEEEecCCCH-HHHHH----HHH-----------------------HH---HHH-cCCCCCHHHHHHHHHhc-------
Confidence            45555543332 21211    111                       11   111 13468888888887632       


Q ss_pred             CcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         167 KEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       167 ~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                +=++|.+..++.-=.+.|.... ..||...+++++.
T Consensus       190 ----------~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~  224 (227)
T PRK08903        190 ----------RRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA  224 (227)
T ss_pred             ----------cCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence                      2257777777776555665555 6899999988764

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.23  E-value=0.49  Score=43.51  Aligned_cols=29  Identities=24%  Similarity=0.200  Sum_probs=26.5

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .+...|++|||.+.|+....++|+..||+
T Consensus       130 ~a~~KVvIIDEad~Ls~~a~naLLKtLEe  158 (598)
T PRK09111        130 SARYKVYIIDEVHMLSTAAFNALLKTLEE  158 (598)
T ss_pred             cCCcEEEEEEChHhCCHHHHHHHHHHHHh
Confidence            46778999999999999999999999996

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.11  E-value=0.14  Score=46.60  Aligned_cols=76  Identities=14%  Similarity=0.112  Sum_probs=59.2

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-CCCCCCCcccccccCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-FGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-~g~~~~~~~~~~~~l~~~   81 (214)
                      -|+|..|++|++=.=|+-|.+.+.+..|+.+-++|.|...  +....+|.+-.|||.+|-. +..|..      -+--.+
T Consensus       248 ~G~L~~aNrGl~EFvEm~K~~~~~L~~LLtatQE~~i~~~--~~~~~i~~D~vIiaHsNE~E~~~F~~------nk~nEA  319 (644)
T PRK15455        248 SGGLCRANQGLLEFVEMFKAPIKVLHPLLTATQEGNYNGT--EGIGAIPFDGIILAHSNESEWQTFRN------NKNNEA  319 (644)
T ss_pred             CchhhhccCCcEeeHHHhcCcHHHHHHhcCCCccCcccCC--CCcceeccceeEEecCCHHHHHHHhc------Cccchh
Confidence            4999999998886669999999999999999999998542  2234568899999999986 333322      123578


Q ss_pred             CCCcc
Q psy7187          82 ILSRF   86 (214)
Q Consensus        82 lldRF   86 (214)
                      |+||+
T Consensus       320 ~~DRi  324 (644)
T PRK15455        320 FLDRI  324 (644)
T ss_pred             hhceE
Confidence            99997

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.10  E-value=0.3  Score=44.21  Aligned_cols=28  Identities=21%  Similarity=0.216  Sum_probs=25.5

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||.++|+....++|+..||+
T Consensus       118 ~~~kVvIIDEad~ls~~a~naLLK~LEe  145 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSAFNAMLKTLEE  145 (527)
T ss_pred             CCceEEEEcCcccCCHHHHHHHHHHHhC
Confidence            4567999999999999999999999997

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.07  E-value=0.31  Score=44.49  Aligned_cols=29  Identities=21%  Similarity=0.203  Sum_probs=26.0

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .+...|++|||++.|+....++|+..||+
T Consensus       117 ~~~~KVvIIDEa~~Ls~~a~naLLK~LEe  145 (563)
T PRK06647        117 SSRYRVYIIDEVHMLSNSAFNALLKTIEE  145 (563)
T ss_pred             cCCCEEEEEEChhhcCHHHHHHHHHhhcc
Confidence            35678999999999999999999999986

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.01  E-value=0.21  Score=47.66  Aligned_cols=124  Identities=14%  Similarity=0.110  Sum_probs=73.2

Q ss_pred             CCceEeeccCCCCCH--------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187          10 DGGVVCIDEFDKMRE--------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~--------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      .+.|+||||++.+-.        +..+.|..+++.|.               ..+|||+++.+-+       ..+...+.
T Consensus       271 ~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~---------------l~~IgaTt~~ey~-------~~ie~D~a  328 (821)
T CHL00095        271 NNIILVIDEVHTLIGAGAAEGAIDAANILKPALARGE---------------LQCIGATTLDEYR-------KHIEKDPA  328 (821)
T ss_pred             CCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCCC---------------cEEEEeCCHHHHH-------HHHhcCHH
Confidence            346899999975432        24456666666543               5668888885210       11235678


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCC-CCCHHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGP-RLTHEAGEKLKNRYV  160 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p-~ls~ea~~~i~~~y~  160 (214)
                      |..||..+ .+.. ++.+....|.+.+......-       ..-.++.+.+.....++..++.- .+++.|.++|..+..
T Consensus       329 L~rRf~~I-~v~e-p~~~e~~aILr~l~~~~e~~-------~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~a  399 (821)
T CHL00095        329 LERRFQPV-YVGE-PSVEETIEILFGLRSRYEKH-------HNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAGS  399 (821)
T ss_pred             HHhcceEE-ecCC-CCHHHHHHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHHH
Confidence            89999764 3333 33333334444433332211       11127788888888888776432 467788888888776


Q ss_pred             HHhc
Q psy7187         161 LMRN  164 (214)
Q Consensus       161 ~~r~  164 (214)
                      ..|-
T Consensus       400 ~~~~  403 (821)
T CHL00095        400 RVRL  403 (821)
T ss_pred             HHHh
Confidence            5543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.94  E-value=0.4  Score=43.01  Aligned_cols=28  Identities=21%  Similarity=0.241  Sum_probs=25.3

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+.+..++|+..||+
T Consensus       118 ~~~KVvIIDEad~Lt~~a~naLLk~LEe  145 (486)
T PRK14953        118 GKYKVYIIDEAHMLTKEAFNALLKTLEE  145 (486)
T ss_pred             CCeeEEEEEChhhcCHHHHHHHHHHHhc
Confidence            5668999999999999999999999986

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=94.89  E-value=0.13  Score=43.14  Aligned_cols=55  Identities=29%  Similarity=0.488  Sum_probs=42.1

Q ss_pred             cCCceEeeccCCCC-CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKM-REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~-~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +..+|++|||++.+ ..+....|+..|++.             +..+.+|.++|...            .+.+++.+||.
T Consensus        99 ~~~~vliiDe~d~l~~~~~~~~L~~~le~~-------------~~~~~~Ilt~n~~~------------~l~~~l~sR~~  153 (316)
T PHA02544         99 GGGKVIIIDEFDRLGLADAQRHLRSFMEAY-------------SKNCSFIITANNKN------------GIIEPLRSRCR  153 (316)
T ss_pred             CCCeEEEEECcccccCHHHHHHHHHHHHhc-------------CCCceEEEEcCChh------------hchHHHHhhce
Confidence            46789999999999 666778888888852             34567788887532            27789999996


Q ss_pred             E
Q psy7187          88 M   88 (214)
Q Consensus        88 L   88 (214)
                      .
T Consensus       154 ~  154 (316)
T PHA02544        154 V  154 (316)
T ss_pred             E
Confidence            4

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.89  E-value=0.31  Score=44.63  Aligned_cols=53  Identities=21%  Similarity=0.249  Sum_probs=39.8

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceE-EEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCS-VLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~-viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+...|++|||.+.|+....++|+..||+-             |..+. |++|.+|.             +|+..|+||+
T Consensus       117 ~~~~KVvIIdev~~Lt~~a~naLLk~LEep-------------p~~~~fIl~t~~~~-------------kl~~tI~SRc  170 (576)
T PRK14965        117 RSRYKIFIIDEVHMLSTNAFNALLKTLEEP-------------PPHVKFIFATTEPH-------------KVPITILSRC  170 (576)
T ss_pred             cCCceEEEEEChhhCCHHHHHHHHHHHHcC-------------CCCeEEEEEeCChh-------------hhhHHHHHhh
Confidence            356789999999999999999999999962             23333 34554552             3778888887

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.87  E-value=1.1  Score=40.38  Aligned_cols=28  Identities=21%  Similarity=0.249  Sum_probs=25.6

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++..|++|||.+.++.+.++.|+..||+
T Consensus       115 ~~~kVVIIDEad~ls~~a~naLLk~LEe  142 (504)
T PRK14963        115 GGRKVYILDEAHMMSKSAFNALLKTLEE  142 (504)
T ss_pred             CCCeEEEEECccccCHHHHHHHHHHHHh
Confidence            5678999999999999999999999987

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.82  E-value=0.99  Score=38.72  Aligned_cols=28  Identities=18%  Similarity=0.197  Sum_probs=24.6

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++..|++|||++.+.....+.|+..||+
T Consensus       107 ~~~kiviIDE~~~l~~~~~~~ll~~le~  134 (367)
T PRK14970        107 GKYKIYIIDEVHMLSSAAFNAFLKTLEE  134 (367)
T ss_pred             CCcEEEEEeChhhcCHHHHHHHHHHHhC
Confidence            4668999999999999888999988875

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=94.70  E-value=0.72  Score=44.05  Aligned_cols=28  Identities=18%  Similarity=0.167  Sum_probs=26.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ....|++|||+++|+....++|+..||+
T Consensus       119 ~~~KV~IIDEad~lt~~a~NaLLK~LEE  146 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQGFNALLKIVEE  146 (824)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHHhC
Confidence            5668999999999999999999999997

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=94.64  E-value=0.34  Score=44.41  Aligned_cols=28  Identities=21%  Similarity=0.185  Sum_probs=26.1

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++.+|++|||.+.|+.+..++|+..||+
T Consensus       118 ~~~KVIIIDEad~Lt~~A~NaLLKtLEE  145 (605)
T PRK05896        118 FKYKVYIIDEAHMLSTSAWNALLKTLEE  145 (605)
T ss_pred             CCcEEEEEechHhCCHHHHHHHHHHHHh
Confidence            5789999999999999999999999997

>PRK09087 hypothetical protein; Validated

Probab=94.40  E-value=1.1  Score=35.90  Aligned_cols=50  Identities=14%  Similarity=0.021  Sum_probs=32.4

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .+++++.++|.+...                 =++|.++.++.--.+.|...+ ..||..-+++++.-
T Consensus       172 ~l~~ev~~~La~~~~-----------------r~~~~l~~~l~~L~~~~~~~~-~~it~~~~~~~l~~  221 (226)
T PRK09087        172 YVDPHVVYYLVSRME-----------------RSLFAAQTIVDRLDRLALERK-SRITRALAAEVLNE  221 (226)
T ss_pred             CCCHHHHHHHHHHhh-----------------hhHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHh
Confidence            588999999977553                 146666654433334444444 45899988888753

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=94.38  E-value=0.47  Score=44.74  Aligned_cols=66  Identities=26%  Similarity=0.357  Sum_probs=42.7

Q ss_pred             CCceEeeccCCCCC------------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          10 DGGVVCIDEFDKMR------------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~------------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      ...|+|+||++.+-            ....+.|+.-|+.         .  .-+.+..||||+|...-            
T Consensus       546 ~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg---------~--~~~~~v~vI~aTn~~~~------------  602 (733)
T TIGR01243       546 APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDG---------I--QELSNVVVIAATNRPDI------------  602 (733)
T ss_pred             CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhc---------c--cCCCCEEEEEeCCChhh------------
Confidence            34799999998762            2344556666652         1  01346889999987532            


Q ss_pred             CCCCCC--CcccEEEEecCCCCcc
Q psy7187          78 FMPTIL--SRFDMIFIIKDEHDET   99 (214)
Q Consensus        78 l~~~ll--dRFDL~~~~~~~~~~~   99 (214)
                      |.++++  +|||..+.+. .++.+
T Consensus       603 ld~allRpgRfd~~i~v~-~Pd~~  625 (733)
T TIGR01243       603 LDPALLRPGRFDRLILVP-PPDEE  625 (733)
T ss_pred             CCHhhcCCCccceEEEeC-CcCHH
Confidence            777777  5999887764 34433

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

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=94.29  E-value=0.57  Score=41.33  Aligned_cols=165  Identities=15%  Similarity=0.194  Sum_probs=90.9

Q ss_pred             cceeeccCCceEeeccCCCCC---HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCC--CC-CCC---cc-
Q psy7187           3 GGAMVLADGGVVCIDEFDKMR---EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFG--RW-DDT---KG-   72 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~---~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g--~~-~~~---~~-   72 (214)
                      .|++..-|  ++++||+...+   ++....|..-||+|..+..+.    +..+.++++-..|....  .. ...   .+ 
T Consensus       254 ~GlV~~~D--~VafDEv~~i~f~d~d~i~imK~YMesG~fsRG~~----~i~a~as~vf~GNi~~~v~~~~~~~~lf~~l  327 (457)
T PF13337_consen  254 IGLVGRWD--VVAFDEVAGIKFKDKDEIQIMKDYMESGSFSRGKE----EINADASMVFVGNINQSVENMLKTSHLFEPL  327 (457)
T ss_pred             ceeeeecc--EEEEEeccCcccCChHHHHHHHHHHhccceeeccc----ccccceeEEEEcCcCCcchhccccchhhhhc
Confidence            34444433  68999999876   556688899999999887442    66777888888887621  11 000   01 


Q ss_pred             cccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHH
Q psy7187          73 EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAG  152 (214)
Q Consensus        73 ~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~  152 (214)
                      .+.++ ..++||||..++.--+.+-      +....            ....--+..+.+-+++..-|..       .-.
T Consensus       328 P~~~~-DsAflDRiH~~iPGWeiPk------~~~e~------------~t~~~gl~~Dy~aE~l~~LR~~-------~~~  381 (457)
T PF13337_consen  328 PEEMR-DSAFLDRIHGYIPGWEIPK------IRPEM------------FTNGYGLIVDYFAEILHELRKQ-------SYS  381 (457)
T ss_pred             CHHHH-HHHHHhHhheeccCccccc------cCHHH------------ccCCceeeHHHHHHHHHHHHHH-------HHH
Confidence            22233 5688888865553211111      00000            0011123344444444333321       011


Q ss_pred             HHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCC-CCCcHHHHHHHHh
Q psy7187         153 EKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLE-PFAIDSHVTEALR  212 (214)
Q Consensus       153 ~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r-~~V~~~Dv~~Ai~  212 (214)
                      ..+.+++.             ....++.|...++-|+..+.-||-.= ..++.+|+++.++
T Consensus       382 ~~~~~~~~-------------lg~~~~~RD~~AV~kt~SgllKLL~P~~~~~~ee~~~~l~  429 (457)
T PF13337_consen  382 DAVDKYFK-------------LGSNLSQRDTKAVKKTVSGLLKLLFPHGEFTKEELEECLR  429 (457)
T ss_pred             HHHHhhEe-------------eCCCcchhhHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHH
Confidence            12211110             11346788888888998888888554 4788888877654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=94.25  E-value=0.85  Score=42.79  Aligned_cols=57  Identities=23%  Similarity=0.265  Sum_probs=41.9

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceE-EEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCS-VLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~-viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +...|++|||.+.|.....++|+..||+-             |..+. |++|.+|.             .|++.+++|+-
T Consensus       117 g~~KV~IIDEa~~LT~~A~NALLKtLEEP-------------P~~tifILaTte~~-------------KLl~TI~SRcq  170 (725)
T PRK07133        117 SKYKIYIIDEVHMLSKSAFNALLKTLEEP-------------PKHVIFILATTEVH-------------KIPLTILSRVQ  170 (725)
T ss_pred             CCCEEEEEEChhhCCHHHHHHHHHHhhcC-------------CCceEEEEEcCChh-------------hhhHHHHhhce
Confidence            56679999999999999999999999963             22333 44554552             37788999994


Q ss_pred             EEEEe
Q psy7187          88 MIFII   92 (214)
Q Consensus        88 L~~~~   92 (214)
                       .+.+
T Consensus       171 -~ieF  174 (725)
T PRK07133        171 -RFNF  174 (725)
T ss_pred             -eEEc
Confidence             4444

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=94.25  E-value=0.58  Score=40.82  Aligned_cols=25  Identities=8%  Similarity=0.199  Sum_probs=16.1

Q ss_pred             CceEeeccCCCCCHH--HHHHHHHhhh
Q psy7187          11 GGVVCIDEFDKMRED--DRVAIHEAME   35 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~--~~~~L~e~me   35 (214)
                      -.+++|||++.+...  .+..|...+.
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n  226 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFN  226 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHH
Confidence            468999999987543  3444554443

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).

>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin

Probab=94.16  E-value=0.35  Score=30.65  Aligned_cols=64  Identities=19%  Similarity=0.173  Sum_probs=46.3

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+...-.  ...+++++...+......                    -++.|.+-|..+|.-+.|.+|+.+
T Consensus         2 ~lP~a~vkri~k~~~~--~~~vs~ea~~~i~~a~e~--------------------Fi~~l~~~A~~~a~~~~rkti~~~   59 (65)
T PF00808_consen    2 SLPLARVKRIMKSDPD--VMRVSKEAVEAIAKAAEE--------------------FIQYLAKEANEIAQRDKRKTITYE   59 (65)
T ss_dssp             SS-HHHHHHHHHHTST--TSEE-HHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTSSEE-HH
T ss_pred             CCChHHHHHHhccCCC--ccchhHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCccCHH
Confidence            3566777777664421  124789998888776643                    266888999999999999999999


Q ss_pred             HHHHHH
Q psy7187         206 HVTEAL  211 (214)
Q Consensus       206 Dv~~Ai  211 (214)
                      ||..|+
T Consensus        60 Dv~~Av   65 (65)
T PF00808_consen   60 DVAKAV   65 (65)
T ss_dssp             HHHHHH
T ss_pred             HHHHHC
Confidence            999985

The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....

>PF13148 DUF3987: Protein of unknown function (DUF3987)

Probab=94.12  E-value=0.15  Score=43.89  Aligned_cols=183  Identities=19%  Similarity=0.216  Sum_probs=104.2

Q ss_pred             CceEeeccCCCC----CH----HHHHHHHHhhhcCeEEEEecceE-EEE-eCceEEEEeecCC-C-CCCCCCcccccccC
Q psy7187          11 GGVVCIDEFDKM----RE----DDRVAIHEAMEQQTISIAKAGIT-TTL-NSRCSVLAAANSV-F-GRWDDTKGEQNIDF   78 (214)
Q Consensus        11 ~Gv~~iDE~~~~----~~----~~~~~L~e~me~~~i~i~~~g~~-~~l-pa~~~viaa~Np~-~-g~~~~~~~~~~~~l   78 (214)
                      ++.++.||+..+    ..    ...+.|+++-..+.+++.|.+.. ..+ ....+|++++-|. . ..+...  ....-.
T Consensus       150 ~~l~~~dE~~~~~~~~~~~~~~~~~~~ll~~~dg~~~~~~R~~~~~~~i~~~~lsi~~~~QP~~l~~~~~~~--~~~~~~  227 (378)
T PF13148_consen  150 GLLLFSDEGGGLLNSMGRYGGGSDRDLLLKAWDGEPYSIDRKSRGSIYIENPRLSILGGIQPDVLKREILSA--EDPEFR  227 (378)
T ss_pred             eEEEEchhHHHHHHHhhcccCCccHHHHHHHhCCCCeeeeeccCCcccCCCceEEEEeccChHHHHHHHhhh--hccccc
Confidence            345677776542    22    45678889999899999887642 333 3678899988885 1 211000  001114


Q ss_pred             CCCCCCcccEEEEecCCCCccc-----cHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhH-----hccCCCCC
Q psy7187          79 MPTILSRFDMIFIIKDEHDETR-----DITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCR-----MRCGPRLT  148 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~~~~~~~-----d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar-----~~~~p~ls  148 (214)
                      ..-|++|| | |.+.+......     +.......+...                .+.++.......     ....-.++
T Consensus       228 ~~Gll~Rf-L-~~~p~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~i~~l~~~~~~~~~~~~~~l~ls  289 (378)
T PF13148_consen  228 GDGLLARF-L-FVIPDSRKGRRFEFPVPEPIDDEALEAY----------------HERIKELLDWPPEDGSDEPIVLELS  289 (378)
T ss_pred             CCChHhhe-e-eeccCcccccccccCCCCcccHHHHHHH----------------HHHHHHHHhhhhcccCCCCeEEecC
Confidence            56788999 7 55544321110     000000000000                012222222221     00112689


Q ss_pred             HHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccC-----CCCCCcHHHHHHHHhc
Q psy7187         149 HEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ-----LEPFAIDSHVTEALRL  213 (214)
Q Consensus       149 ~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~-----~r~~V~~~Dv~~Ai~l  213 (214)
                      ++|.+++.++|..+............-..+-.|.-..+.|+|--++-++     ....|+.+++..|+.|
T Consensus       290 ~eA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~K~~~~~~RlA~ilh~~~~~~~~~~~~I~~~~~~~Ai~l  359 (378)
T PF13148_consen  290 DEAKELFREWYNELENELRQPGGDLAMRSFASKAAEQALRLALILHLFESGGSPPSTEISAETMERAIRL  359 (378)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCEECHHHHHHHHHH
Confidence            9999999999987765542110110011234567788999999999999     8889999999999876

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

Probab=94.07  E-value=0.49  Score=40.85  Aligned_cols=138  Identities=16%  Similarity=0.117  Sum_probs=83.8

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      =|+.+||++.+-+...+.|++...-..        ..  ..+..+++.+|-..         ....+.+.+-|+|...-+
T Consensus       125 ~IvvLDEid~L~~~~~~~LY~L~r~~~--------~~--~~~v~vi~i~n~~~---------~~~~ld~rv~s~l~~~~I  185 (366)
T COG1474         125 VIVILDEVDALVDKDGEVLYSLLRAPG--------EN--KVKVSIIAVSNDDK---------FLDYLDPRVKSSLGPSEI  185 (366)
T ss_pred             EEEEEcchhhhccccchHHHHHHhhcc--------cc--ceeEEEEEEeccHH---------HHHHhhhhhhhccCccee
Confidence            368899999988775445554433211        11  44678888887751         112245555555544333


Q ss_pred             ecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCC
Q psy7187          92 IKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGE  171 (214)
Q Consensus        92 ~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~  171 (214)
                      .+.+.+   ..+|.+ |+..+...                       +-  -...+++++.+++...+...         
T Consensus       186 ~F~pY~---a~el~~-Il~~R~~~-----------------------~~--~~~~~~~~vl~lia~~~a~~---------  227 (366)
T COG1474         186 VFPPYT---AEELYD-ILRERVEE-----------------------GF--SAGVIDDDVLKLIAALVAAE---------  227 (366)
T ss_pred             eeCCCC---HHHHHH-HHHHHHHh-----------------------hc--cCCCcCccHHHHHHHHHHHc---------
Confidence            333322   223322 22222111                       10  12357888888887766531         


Q ss_pred             CccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         172 KKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       172 ~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                          .+ ..|.-..++|.|--+|.-+++..|+++||..|.
T Consensus       228 ----~G-DAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~  262 (366)
T COG1474         228 ----SG-DARKAIDILRRAGEIAEREGSRKVSEDHVREAQ  262 (366)
T ss_pred             ----Cc-cHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHH
Confidence                11 688889999999999999999999999999984

>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=94.00  E-value=0.74  Score=29.95  Aligned_cols=47  Identities=19%  Similarity=0.037  Sum_probs=39.8

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++...+.++.-.                    -+..+..-|...|+-++|++|+.+|+.-|++
T Consensus        19 ~~~~da~~~l~~~~e~--------------------fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~   65 (72)
T cd07981          19 QLDPDVEELLLEIADD--------------------FVDDVVEDACRLAKHRKSDTLEVKDVQLHLE   65 (72)
T ss_pred             CcCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            6899999998876643                    1568889999999999999999999998864

The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=93.95  E-value=0.26  Score=43.65  Aligned_cols=23  Identities=13%  Similarity=0.274  Sum_probs=14.8

Q ss_pred             ceEeeccCCCCCHH--HHHHHHHhh
Q psy7187          12 GVVCIDEFDKMRED--DRVAIHEAM   34 (214)
Q Consensus        12 Gv~~iDE~~~~~~~--~~~~L~e~m   34 (214)
                      -+++|||++.+..+  .++.|+..+
T Consensus       213 dlLiiDDi~~l~~~~~~~~~l~~~~  237 (450)
T PRK00149        213 DVLLIDDIQFLAGKERTQEEFFHTF  237 (450)
T ss_pred             CEEEEehhhhhcCCHHHHHHHHHHH
Confidence            48999999987542  334444433

>CHL00206 ycf2 Ycf2; Provisional

Probab=93.84  E-value=0.69  Score=47.67  Aligned_cols=64  Identities=8%  Similarity=0.170  Sum_probs=42.0

Q ss_pred             ceEeeccCCCCCHHH-----HHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCC--
Q psy7187          12 GVVCIDEFDKMREDD-----RVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILS--   84 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~-----~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lld--   84 (214)
                      -|++||||+.+....     +..|+.-|....-.        .-.....||||+|...-            |.++|+-  
T Consensus      1734 CIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~--------~s~~~VIVIAATNRPD~------------LDPALLRPG 1793 (2281)
T CHL00206       1734 CIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCER--------CSTRNILVIASTHIPQK------------VDPALIAPN 1793 (2281)
T ss_pred             eEEEEEchhhcCCCccceehHHHHHHHhcccccc--------CCCCCEEEEEeCCCccc------------CCHhHcCCC
Confidence            478999999987642     45555556421100        00224789999997532            7888886  


Q ss_pred             cccEEEEecCC
Q psy7187          85 RFDMIFIIKDE   95 (214)
Q Consensus        85 RFDL~~~~~~~   95 (214)
                      |||-.+.+..+
T Consensus      1794 RFDR~I~Ir~P 1804 (2281)
T CHL00206       1794 KLNTCIKIRRL 1804 (2281)
T ss_pred             CCCeEEEeCCC
Confidence            99988876543

>KOG2004|consensus

Probab=93.76  E-value=0.18  Score=46.81  Aligned_cols=68  Identities=24%  Similarity=0.372  Sum_probs=46.3

Q ss_pred             cCCceEeeccCCCCCH----HHHHHHHHhhh-cCeEEEEecceEEEEe---CceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           9 ADGGVVCIDEFDKMRE----DDRVAIHEAME-QQTISIAKAGITTTLN---SRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~----~~~~~L~e~me-~~~i~i~~~g~~~~lp---a~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      ..+-+++|||++++-.    +=-++|+|.|+ +|.-+..  ......|   ++..+|||+|-..-            ||+
T Consensus       504 t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFl--DHYLdVp~DLSkVLFicTAN~idt------------IP~  569 (906)
T KOG2004|consen  504 TENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFL--DHYLDVPVDLSKVLFICTANVIDT------------IPP  569 (906)
T ss_pred             CCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchh--hhccccccchhheEEEEecccccc------------CCh
Confidence            4667899999999764    23468999998 4443331  1111222   24789999998743            999


Q ss_pred             CCCCcccEEE
Q psy7187          81 TILSRFDMIF   90 (214)
Q Consensus        81 ~lldRFDL~~   90 (214)
                      ||+||..++=
T Consensus       570 pLlDRMEvIe  579 (906)
T KOG2004|consen  570 PLLDRMEVIE  579 (906)
T ss_pred             hhhhhhheee
Confidence            9999987543

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

Probab=93.61  E-value=0.77  Score=41.36  Aligned_cols=54  Identities=24%  Similarity=0.235  Sum_probs=43.0

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+.-.|..|||...++...-++|+..+|+---.|            .-|+||++|.             ++|.-++||.
T Consensus       117 ~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV------------~FIlATTe~~-------------Kip~TIlSRc  170 (515)
T COG2812         117 EGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHV------------KFILATTEPQ-------------KIPNTILSRC  170 (515)
T ss_pred             cccceEEEEecHHhhhHHHHHHHhcccccCccCe------------EEEEecCCcC-------------cCchhhhhcc
Confidence            3455799999999999999999999999733222            4578888885             4888999987

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=93.61  E-value=0.21  Score=47.92  Aligned_cols=122  Identities=15%  Similarity=0.154  Sum_probs=70.2

Q ss_pred             CceEeeccCCCCCH--------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          11 GGVVCIDEFDKMRE--------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +.|+||||++.+..        +..+.|...++.|               +..+|||+++.+-+       ..+++.+++
T Consensus       267 ~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g---------------~i~~IgaTt~~e~r-------~~~~~d~al  324 (852)
T TIGR03346       267 QIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG---------------ELHCIGATTLDEYR-------KYIEKDAAL  324 (852)
T ss_pred             CeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC---------------ceEEEEeCcHHHHH-------HHhhcCHHH
Confidence            46999999998752        2344444444332               46788888885211       124578999


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYVL  161 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~~  161 (214)
                      .+||..+. +.. ++.+....    |++......+   ...+-.++.+.+..-+.++..++. -.+++.|.++|......
T Consensus       325 ~rRf~~i~-v~~-p~~~~~~~----iL~~~~~~~e---~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~a~  395 (852)
T TIGR03346       325 ERRFQPVF-VDE-PTVEDTIS----ILRGLKERYE---VHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAAAR  395 (852)
T ss_pred             HhcCCEEE-eCC-CCHHHHHH----HHHHHHHHhc---cccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHHHH
Confidence            99998643 433 33332222    4443322211   112234566677777777766643 25677888888776654


Q ss_pred             Hh
Q psy7187         162 MR  163 (214)
Q Consensus       162 ~r  163 (214)
                      .|
T Consensus       396 ~~  397 (852)
T TIGR03346       396 IR  397 (852)
T ss_pred             HH
Confidence            43

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

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.36  E-value=1.7  Score=40.03  Aligned_cols=29  Identities=28%  Similarity=0.269  Sum_probs=26.5

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .++..|++|||++.|+.+..+.|+..||+
T Consensus       118 ~~~~kVvIIDEa~~L~~~a~naLLk~LEe  146 (585)
T PRK14950        118 LARYKVYIIDEVHMLSTAAFNALLKTLEE  146 (585)
T ss_pred             cCCeEEEEEeChHhCCHHHHHHHHHHHhc
Confidence            46789999999999999999999999997

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.31  E-value=1.1  Score=39.00  Aligned_cols=29  Identities=21%  Similarity=0.129  Sum_probs=25.2

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .+...|++|||++.|+....+.|+..||+
T Consensus       125 ~~~~kvvIIdea~~l~~~~~~~LLk~LEe  153 (397)
T PRK14955        125 KGRYRVYIIDEVHMLSIAAFNAFLKTLEE  153 (397)
T ss_pred             cCCeEEEEEeChhhCCHHHHHHHHHHHhc
Confidence            35678999999999999888999999985

>PRK08727 hypothetical protein; Validated

Probab=93.24  E-value=1  Score=36.14  Aligned_cols=49  Identities=12%  Similarity=-0.011  Sum_probs=29.8

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++.++|.+...                 =+.|.+..++....+.|....+ .||.+.+++.+.
T Consensus       181 ~l~~e~~~~La~~~~-----------------rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~  229 (233)
T PRK08727        181 ALDEAAIDWLLTHGE-----------------RELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLE  229 (233)
T ss_pred             CCCHHHHHHHHHhCC-----------------CCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHh
Confidence            578888888876431                 1355554444444433333344 799999888764

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=93.20  E-value=0.11  Score=45.26  Aligned_cols=59  Identities=25%  Similarity=0.357  Sum_probs=45.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      ++..|++|||++.|++...++|+..||+..            +....|++|.||.             .+.+.++||+ .
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~------------~~~~fIL~a~~~~-------------~llpTIrSRc-~  169 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPP------------PRTVWLLCAPSPE-------------DVLPTIRSRC-R  169 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCC------------CCCeEEEEECChH-------------HChHHHHhhC-e
Confidence            566799999999999999999999999722            2235677787773             2778999998 4


Q ss_pred             EEEec
Q psy7187          89 IFIIK   93 (214)
Q Consensus        89 ~~~~~   93 (214)
                      .+.+.
T Consensus       170 ~i~f~  174 (394)
T PRK07940        170 HVALR  174 (394)
T ss_pred             EEECC
Confidence            45443

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=93.09  E-value=1.7  Score=35.18  Aligned_cols=51  Identities=12%  Similarity=0.007  Sum_probs=40.1

Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+++++.+.|.+.-                .+ .+|.+..+...+...|.....+.|+.++|.+|+.
T Consensus       214 ~~~~~~~~~~i~~~s----------------~G-~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~  264 (269)
T TIGR03015       214 PVFSEGAFDAIHRFS----------------RG-IPRLINILCDRLLLSAFLEEKREIGGEEVREVIA  264 (269)
T ss_pred             CCcCHHHHHHHHHHc----------------CC-cccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            357888887776532                11 2677888999999999889999999999999975

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=93.00  E-value=0.22  Score=47.81  Aligned_cols=118  Identities=14%  Similarity=0.156  Sum_probs=63.4

Q ss_pred             ceEeeccCCCCCHH--------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187          12 GVVCIDEFDKMRED--------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus        12 Gv~~iDE~~~~~~~--------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      -|+||||+..+...        ..+.|..+|+.|               +..+|||+++.+-+       ..+++.+++.
T Consensus       273 ~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g---------------~l~~IgaTt~~e~r-------~~~~~d~al~  330 (857)
T PRK10865        273 VILFIDELHTMVGAGKADGAMDAGNMLKPALARG---------------ELHCVGATTLDEYR-------QYIEKDAALE  330 (857)
T ss_pred             eEEEEecHHHhccCCCCccchhHHHHhcchhhcC---------------CCeEEEcCCCHHHH-------HHhhhcHHHH
Confidence            48999999988532        345555555443               46788999886311       1245789999


Q ss_pred             CcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHH
Q psy7187          84 SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYV  160 (214)
Q Consensus        84 dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~  160 (214)
                      .||+.++ +.. |+.+....    +++.......   ...+-.++.+.+...+..+..++. ..+++.|.+++.....
T Consensus       331 rRf~~i~-v~e-P~~~~~~~----iL~~l~~~~e---~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD~aaa  399 (857)
T PRK10865        331 RRFQKVF-VAE-PSVEDTIA----ILRGLKERYE---LHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAAS  399 (857)
T ss_pred             hhCCEEE-eCC-CCHHHHHH----HHHHHhhhhc---cCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHHHHhc
Confidence            9998654 333 33332222    3333222111   111223445555544444444432 3566777666655443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=92.99  E-value=0.81  Score=42.09  Aligned_cols=25  Identities=4%  Similarity=0.308  Sum_probs=17.0

Q ss_pred             ceEeeccCCCCCHH--HHHHHHHhhhc
Q psy7187          12 GVVCIDEFDKMRED--DRVAIHEAMEQ   36 (214)
Q Consensus        12 Gv~~iDE~~~~~~~--~~~~L~e~me~   36 (214)
                      .++|||||..+..+  ..+.|+..+..
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~  405 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNT  405 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHH
Confidence            58999999997553  34556665553

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=92.83  E-value=1.7  Score=38.55  Aligned_cols=28  Identities=14%  Similarity=0.248  Sum_probs=26.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      ++..|++|||++.|+.+..+.|+..||+
T Consensus       120 ~~~kvvIIdead~lt~~~~n~LLk~lEe  147 (451)
T PRK06305        120 SRYKIYIIDEVHMLTKEAFNSLLKTLEE  147 (451)
T ss_pred             CCCEEEEEecHHhhCHHHHHHHHHHhhc
Confidence            6778999999999999999999999996

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=92.78  E-value=0.84  Score=40.47  Aligned_cols=65  Identities=9%  Similarity=0.247  Sum_probs=35.0

Q ss_pred             CCceEeeccCCCCCH--HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          10 DGGVVCIDEFDKMRE--DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~--~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      .-.|++|||+..+..  ..++.++..+..-.    ..|       ...|+++..|-         .+...+.+.|.+||.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~----~~~-------k~IIlts~~~p---------~~l~~l~~rL~SR~~  261 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLH----TEG-------KLIVISSTCAP---------QDLKAMEERLISRFE  261 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHH----HCC-------CcEEEecCCCH---------HHHhhhHHHHHhhhc
Confidence            346999999998854  34455555543211    011       12334433321         011137789999995


Q ss_pred             --EEEEecC
Q psy7187          88 --MIFIIKD   94 (214)
Q Consensus        88 --L~~~~~~   94 (214)
                        +++.+..
T Consensus       262 ~Gl~~~l~~  270 (445)
T PRK12422        262 WGIAIPLHP  270 (445)
T ss_pred             CCeEEecCC
Confidence              6665543

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.68  E-value=3.3  Score=38.38  Aligned_cols=29  Identities=17%  Similarity=0.240  Sum_probs=26.3

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .++..|++|||.+.|+.+..++|+..||+
T Consensus       119 ~~~~KVvIIdea~~Ls~~a~naLLK~LEe  147 (614)
T PRK14971        119 IGKYKIYIIDEVHMLSQAAFNAFLKTLEE  147 (614)
T ss_pred             cCCcEEEEEECcccCCHHHHHHHHHHHhC
Confidence            35678999999999999999999999996

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

Probab=92.54  E-value=0.84  Score=37.65  Aligned_cols=36  Identities=17%  Similarity=0.145  Sum_probs=29.6

Q ss_pred             ccCHHH-HHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQ-LEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~-l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ++|-|. -+.+++-|--.|-+++++.|+.+|+..|..
T Consensus       317 g~SgRdikekvlK~aLh~Ai~ed~e~v~~edie~al~  353 (368)
T COG1223         317 GMSGRDIKEKVLKTALHRAIAEDREKVEREDIEKALK  353 (368)
T ss_pred             CCCchhHHHHHHHHHHHHHHHhchhhhhHHHHHHHHH
Confidence            345555 478889998899999999999999998864

>KOG1051|consensus

Probab=92.38  E-value=0.18  Score=48.00  Aligned_cols=55  Identities=13%  Similarity=0.156  Sum_probs=44.0

Q ss_pred             eccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           7 VLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         7 ~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      -.--.-|+++||+++.+++++..|+++|+.|.++=.. |....+. ++.||.|+|--
T Consensus       657 rrrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~-Gr~Vd~k-N~I~IMTsn~~  711 (898)
T KOG1051|consen  657 KRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSH-GREVDFK-NAIFIMTSNVG  711 (898)
T ss_pred             hcCCceEEEEechhhcCHHHHHHHHHHHhcCccccCC-CcEeecc-ceEEEEecccc
Confidence            3344569999999999999999999999999998543 3344443 69999999884

>KOG0734|consensus

Probab=92.20  E-value=0.75  Score=41.53  Aligned_cols=36  Identities=17%  Similarity=0.043  Sum_probs=28.2

Q ss_pred             cccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         176 IPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       176 ~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      -++|-.-++.|+-.|--.|..++.+.|+..|++.|.
T Consensus       503 ~GFsGAdLaNlVNqAAlkAa~dga~~VtM~~LE~ak  538 (752)
T KOG0734|consen  503 PGFSGADLANLVNQAALKAAVDGAEMVTMKHLEFAK  538 (752)
T ss_pred             CCCchHHHHHHHHHHHHHHHhcCcccccHHHHhhhh
Confidence            456667777888888888888888888888887763

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

Probab=91.83  E-value=0.96  Score=38.64  Aligned_cols=137  Identities=20%  Similarity=0.325  Sum_probs=78.2

Q ss_pred             CCceEeeccCCCCCHH------------HHHHHHHhhhcCeEEEEecceEEEEeCce-EEEEeecCCCCCCCCCcccccc
Q psy7187          10 DGGVVCIDEFDKMRED------------DRVAIHEAMEQQTISIAKAGITTTLNSRC-SVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~-~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      +.||+|||||++....            ++--|+ |+=+|+.--.|.|.+.|   +. .+||+     |-|.-.|   ..
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlL-PlvEGstV~TKyG~VkT---dHILFIas-----GAFh~sK---PS  317 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLL-PLVEGSTVSTKYGPVKT---DHILFIAS-----GAFHVAK---PS  317 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhccccc-ccccCceeecccccccc---ceEEEEec-----CceecCC---hh
Confidence            5699999999986442            222233 33345555556665433   33 33443     3332221   12


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhc-cCCCCCHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMR-CGPRLTHEAGEKL  155 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~-~~p~ls~ea~~~i  155 (214)
                      .|-+.|=.||.+.+-+..-...  |   -.+||-               +-...+++.|.+.-+.. +.-.|++++.+.|
T Consensus       318 DLiPELQGRfPIRVEL~~Lt~~--D---f~rILt---------------ep~~sLikQY~aLlkTE~v~l~FtddaI~~i  377 (444)
T COG1220         318 DLIPELQGRFPIRVELDALTKE--D---FERILT---------------EPKASLIKQYKALLKTEGVELEFTDDAIKRI  377 (444)
T ss_pred             hcChhhcCCCceEEEcccCCHH--H---HHHHHc---------------CcchHHHHHHHHHHhhcCeeEEecHHHHHHH
Confidence            3667777899888877433211  1   122222               11345788888766642 3457899999999


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHH
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIV  187 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~li  187 (214)
                      ...........         ..+..|-|++++
T Consensus       378 AeiA~~vN~~~---------ENIGARRLhTvl  400 (444)
T COG1220         378 AEIAYQVNEKT---------ENIGARRLHTVL  400 (444)
T ss_pred             HHHHHHhcccc---------cchhHHHHHHHH
Confidence            88776543332         356778777654

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=91.80  E-value=3.1  Score=36.71  Aligned_cols=37  Identities=16%  Similarity=0.173  Sum_probs=29.5

Q ss_pred             cccCHHHHHHHHHHHHHHhcc-CCCCCCcHHHHHHHHh
Q psy7187         176 IPITVRQLEAIVRIAESMAKM-QLEPFAIDSHVTEALR  212 (214)
Q Consensus       176 ~~~s~R~l~~lirlA~a~A~l-~~r~~V~~~Dv~~Ai~  212 (214)
                      ..++.|-..++-|+.-+.-|| .=.-.++.+|+++.++
T Consensus       394 ~~~~~RD~~aV~kt~SgllKLL~P~~~~~~ee~~~~l~  431 (449)
T TIGR02688       394 PNLNTRDVIAVKKTFSGLMKILFPHGTITKEEFTECLE  431 (449)
T ss_pred             CCcchhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence            357889999999999999998 4445688999887764

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.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=91.80  E-value=0.18  Score=39.72  Aligned_cols=56  Identities=18%  Similarity=0.229  Sum_probs=47.9

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEe--cceEEEEeCceEEEEeecCC
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAK--AGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~--~g~~~~lpa~~~viaa~Np~   63 (214)
                      +...-++++||++.+.....+.|...+-..++++-+  +.....+|-.++++||+|..
T Consensus        93 l~~~~iveldEl~~~~k~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~  150 (198)
T PF05272_consen   93 LQGKWIVELDELDGLSKKDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDD  150 (198)
T ss_pred             HHHhHheeHHHHhhcchhhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCc
Confidence            344568999999999999999999999998888865  33578899999999999985

>PLN00035 histone H4; Provisional

Probab=91.53  E-value=1.9  Score=30.11  Aligned_cols=64  Identities=16%  Similarity=0.157  Sum_probs=46.9

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .++...+++...-+-   --.+|.++.+.+......                    -++.+++=|-+.|+-..|.+|+.+
T Consensus        29 ~ipk~~IrRLARr~G---vkRIS~~ay~elr~vle~--------------------~l~~I~~dav~ya~HA~RKTV~~~   85 (103)
T PLN00035         29 GITKPAIRRLARRGG---VKRISGLIYEETRGVLKI--------------------FLENVIRDAVTYTEHARRKTVTAM   85 (103)
T ss_pred             cCCHHHHHHHHHHcC---cccchHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhcCCCcCcHH
Confidence            367777777654332   135788777777665432                    166788999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        86 DV~~Alk   92 (103)
T PLN00035         86 DVVYALK   92 (103)
T ss_pred             HHHHHHH
Confidence            9999975

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.30  E-value=3.2  Score=38.50  Aligned_cols=28  Identities=25%  Similarity=0.234  Sum_probs=25.6

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+....++|+..||+
T Consensus       120 ~~~KViIIDEad~Lt~~a~naLLK~LEe  147 (620)
T PRK14948        120 ARWKVYVIDECHMLSTAAFNALLKTLEE  147 (620)
T ss_pred             CCceEEEEECccccCHHHHHHHHHHHhc
Confidence            5568999999999999999999999995

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

Probab=91.23  E-value=5.5  Score=34.35  Aligned_cols=80  Identities=25%  Similarity=0.361  Sum_probs=49.0

Q ss_pred             ceEeeccCCCC-----------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187          12 GVVCIDEFDKM-----------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus        12 Gv~~iDE~~~~-----------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      .|+|||||+-+           +.+++-+|+|-+.|-      .|...  -.+.-||||+|-..-            |.+
T Consensus       246 sIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~ql------DGFD~--~~nvKVI~ATNR~D~------------LDP  305 (406)
T COG1222         246 SIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQL------DGFDP--RGNVKVIMATNRPDI------------LDP  305 (406)
T ss_pred             eEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhc------cCCCC--CCCeEEEEecCCccc------------cCh
Confidence            58999999854           346888888888751      34322  235789999987521            444


Q ss_pred             CCC--CcccEEEEecCCCCccccHHHHHHHHHHHHhhc
Q psy7187          81 TIL--SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAG  116 (214)
Q Consensus        81 ~ll--dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~  116 (214)
                      +||  -|||=.+-+. .+|...    ...|++-|....
T Consensus       306 ALLRPGR~DRkIEfp-lPd~~g----R~~Il~IHtrkM  338 (406)
T COG1222         306 ALLRPGRFDRKIEFP-LPDEEG----RAEILKIHTRKM  338 (406)
T ss_pred             hhcCCCcccceeecC-CCCHHH----HHHHHHHHhhhc
Confidence            554  4676444443 344333    345778777653

>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution

Probab=90.86  E-value=2.6  Score=28.41  Aligned_cols=64  Identities=16%  Similarity=0.181  Sum_probs=45.6

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .++...+++...-+-   --.+|.++.+.+.+....                    -++.+++-|-+.|.=.+|.+|+.+
T Consensus        13 gi~k~~I~RLarr~G---vkRIS~d~y~e~~~~l~~--------------------~l~~I~~dav~ya~Ha~RKTVt~~   69 (85)
T cd00076          13 GITKPAIRRLARRGG---VKRISGGVYDEVRNVLKS--------------------YLEDVIRDAVTYTEHAKRKTVTAM   69 (85)
T ss_pred             cCCHHHHHHHHHHcC---cchhhHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhcCCCcCcHH
Confidence            366667776643221   124677766666554432                    166789999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        70 DV~~alk   76 (85)
T cd00076          70 DVVYALK   76 (85)
T ss_pred             HHHHHHH
Confidence            9999874

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=90.82  E-value=2.2  Score=37.96  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=17.8

Q ss_pred             CceEeeccCCCCC--HHHHHHHHHhhh
Q psy7187          11 GGVVCIDEFDKMR--EDDRVAIHEAME   35 (214)
Q Consensus        11 ~Gv~~iDE~~~~~--~~~~~~L~e~me   35 (214)
                      --+++|||+..+.  +..++.|+..+.
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N  233 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFN  233 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHH
Confidence            4589999998876  445566666554

>KOG0730|consensus

Probab=90.75  E-value=5  Score=37.14  Aligned_cols=77  Identities=22%  Similarity=0.276  Sum_probs=51.8

Q ss_pred             ceEeeccCCCCC-----------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187          12 GVVCIDEFDKMR-----------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus        12 Gv~~iDE~~~~~-----------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      -|+|+||++-+-           +.+++.|+.-|+         |+...  .+..|+||+|-..-            |.+
T Consensus       529 ~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmD---------G~e~~--k~V~ViAATNRpd~------------ID~  585 (693)
T KOG0730|consen  529 CIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMD---------GLEAL--KNVLVIAATNRPDM------------IDP  585 (693)
T ss_pred             eEEehhhHHhHhhccCCCccchHHHHHHHHHHHcc---------ccccc--CcEEEEeccCChhh------------cCH
Confidence            689999998753           446778888775         32111  35889999997532            889


Q ss_pred             CCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhc
Q psy7187          81 TILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAG  116 (214)
Q Consensus        81 ~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~  116 (214)
                      +||.  |||-++.+. .+|.+.    ...|++.+.+..
T Consensus       586 ALlRPGRlD~iiyVp-lPD~~a----R~~Ilk~~~kkm  618 (693)
T KOG0730|consen  586 ALLRPGRLDRIIYVP-LPDLEA----RLEILKQCAKKM  618 (693)
T ss_pred             HHcCCcccceeEeec-CccHHH----HHHHHHHHHhcC
Confidence            9998  999777764 334333    345777766543

>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []

Probab=90.64  E-value=2.3  Score=27.40  Aligned_cols=54  Identities=19%  Similarity=0.153  Sum_probs=37.7

Q ss_pred             HHhHhccCC--CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         137 NYCRMRCGP--RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       137 ~~ar~~~~p--~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      .+.++ +.|  .+.+++.+.+...+-..                    ++.++..|...||.+++++++..|+.-.+
T Consensus         7 ~Lv~~-iDp~~~ld~~vee~Ll~laddF--------------------v~~v~~~ac~lAKhR~s~tle~~Dv~~~L   62 (68)
T PF03847_consen    7 ELVKQ-IDPNEKLDPDVEELLLELADDF--------------------VDDVVSFACRLAKHRKSSTLEVKDVQLHL   62 (68)
T ss_dssp             HHHHC-C-SS----HHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTT-SEE-HHHHHHHH
T ss_pred             HHHHH-cCCCCCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHhccCCCCCCHHHHHHHH
Confidence            34444 455  67889999988877442                    66889999999999999999999998665

; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.

>KOG0736|consensus

Probab=90.60  E-value=6.8  Score=37.14  Aligned_cols=102  Identities=20%  Similarity=0.351  Sum_probs=60.7

Q ss_pred             ceEeeccCCCCCH-------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          12 GVVCIDEFDKMRE-------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        12 Gv~~iDE~~~~~~-------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      =|+|.||++-+.+             .+.+.|+--|+         |++..-....-||||+|-- ..           |
T Consensus       766 CVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELD---------gls~~~s~~VFViGATNRP-DL-----------L  824 (953)
T KOG0736|consen  766 CVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELD---------GLSDSSSQDVFVIGATNRP-DL-----------L  824 (953)
T ss_pred             eEEEeccccccCccCCCCCCccccHHHHHHHHHHHhh---------cccCCCCCceEEEecCCCc-cc-----------c
Confidence            4789999998765             35666766663         5544323357788999863 22           4


Q ss_pred             CCCCC--CcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHH
Q psy7187          79 MPTIL--SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHE  150 (214)
Q Consensus        79 ~~~ll--dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~e  150 (214)
                      .++||  -|||=.+++..+.+.+..    .+|+++..+..     ..+..++...+-+      . |.|.+|-.
T Consensus       825 DpALLRPGRFDKLvyvG~~~d~esk----~~vL~AlTrkF-----kLdedVdL~eiAk------~-cp~~~TGA  882 (953)
T KOG0736|consen  825 DPALLRPGRFDKLVYVGPNEDAESK----LRVLEALTRKF-----KLDEDVDLVEIAK------K-CPPNMTGA  882 (953)
T ss_pred             ChhhcCCCccceeEEecCCccHHHH----HHHHHHHHHHc-----cCCCCcCHHHHHh------h-CCcCCchh
Confidence            45554  599988887765554443    34555544432     2334445444333      3 67888864

>smart00803 TAF TATA box binding protein associated factor

Probab=90.43  E-value=3.2  Score=26.42  Aligned_cols=63  Identities=24%  Similarity=0.242  Sum_probs=44.9

Q ss_pred             CChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHH
Q psy7187         127 LPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSH  206 (214)
Q Consensus       127 l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~D  206 (214)
                      ++.+.++....-+-   -..+++++...+......                   | +..+++-|-..++=..|++++.+|
T Consensus         3 ~p~~~i~ria~~~G---i~ris~~a~~~l~~~~e~-------------------r-l~~i~~~A~k~~~hakRktlt~~D   59 (65)
T smart00803        3 LPKETIKDVAESLG---IGNLSDEAAKLLAEDVEY-------------------R-IKEIVQEALKFMRHSKRTTLTTSD   59 (65)
T ss_pred             CCHHHHHHHHHHCC---CccccHHHHHHHHHHHHH-------------------H-HHHHHHHHHHHHHHhCCCeecHHH
Confidence            45566666543321   235888888887665432                   1 446888888899999999999999


Q ss_pred             HHHHHh
Q psy7187         207 VTEALR  212 (214)
Q Consensus       207 v~~Ai~  212 (214)
                      |..|++
T Consensus        60 I~~Alk   65 (65)
T smart00803       60 IDSALR   65 (65)
T ss_pred             HHHHhC
Confidence            999864

TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.

>KOG0745|consensus

Probab=90.26  E-value=0.21  Score=43.73  Aligned_cols=59  Identities=20%  Similarity=0.330  Sum_probs=42.7

Q ss_pred             eeeccCCceEeeccCCCCC--------------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           5 AMVLADGGVVCIDEFDKMR--------------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~~--------------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      -+-.|..||+||||++++.              ..++++|+..+|--.|.|-.-|.....+-+...|-|.|-.
T Consensus       286 nVekAQqGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnIL  358 (564)
T KOG0745|consen  286 NVEKAQQGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNIL  358 (564)
T ss_pred             CHHHHhcCeEEEehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceE
Confidence            3557889999999999987              3588999999987777885555444445555556666653

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.87  E-value=6.9  Score=36.30  Aligned_cols=29  Identities=21%  Similarity=0.158  Sum_probs=26.1

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .+...|++|||.+.|+....++|+..||+
T Consensus       125 ~~~~KVvIIdEad~Lt~~a~naLLK~LEe  153 (620)
T PRK14954        125 KGRYRVYIIDEVHMLSTAAFNAFLKTLEE  153 (620)
T ss_pred             cCCCEEEEEeChhhcCHHHHHHHHHHHhC
Confidence            35678999999999999999999999997

>KOG1808|consensus

Probab=89.83  E-value=0.22  Score=50.66  Aligned_cols=81  Identities=16%  Similarity=0.208  Sum_probs=62.6

Q ss_pred             ceeecc--CCceEeeccCCCCCHHHHHHHHHhhhc-CeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           4 GAMVLA--DGGVVCIDEFDKMREDDRVAIHEAMEQ-QTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         4 G~l~la--~~Gv~~iDE~~~~~~~~~~~L~e~me~-~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      |.+|-|  +|-.+++||+|..+.+++.+|...++. +.+.+......+.-.-+|.+.|+.||..++      .+...++.
T Consensus       499 g~LV~Alr~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y------~grk~lsR  572 (1856)
T KOG1808|consen  499 GVLVQALRNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTY------GGRKILSR  572 (1856)
T ss_pred             hHHHHHHHhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCcccc------chhhhhhh
Confidence            444433  567799999999999999999999997 888887666656656689999999997332      23445899


Q ss_pred             CCCCcccEEE
Q psy7187          81 TILSRFDMIF   90 (214)
Q Consensus        81 ~lldRFDL~~   90 (214)
                      ++++||.-+.
T Consensus       573 a~~~rf~e~~  582 (1856)
T KOG1808|consen  573 ALRNRFIELH  582 (1856)
T ss_pred             cccccchhhh
Confidence            9999996433

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=89.82  E-value=0.62  Score=34.04  Aligned_cols=29  Identities=14%  Similarity=0.457  Sum_probs=26.2

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      .+.+|.++|+|++.++++.+..|.+.++.
T Consensus        67 ~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~   95 (138)
T PF14532_consen   67 QAKGGTLYLKNIDRLSPEAQRRLLDLLKR   95 (138)
T ss_dssp             HCTTSEEEEECGCCS-HHHHHHHHHHHHH
T ss_pred             HcCCCEEEECChHHCCHHHHHHHHHHHHh
Confidence            46899999999999999999999999987

>PTZ00015 histone H4; Provisional

Probab=89.40  E-value=3.6  Score=28.73  Aligned_cols=64  Identities=14%  Similarity=0.141  Sum_probs=45.5

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .++...+++...-+-   --.+|.++.+.+......                    -++.+++=|-+.|.-..|.+|+.+
T Consensus        30 gI~k~~IrRLarr~G---vkRIS~d~y~e~r~vle~--------------------~l~~I~rdav~~aeHA~RKTVt~~   86 (102)
T PTZ00015         30 GITKGAIRRLARRGG---VKRISGDIYEEVRGVLKA--------------------FLENVVRDSTAYTEYARRKTVTAM   86 (102)
T ss_pred             CCCHHHHHHHHHHcC---CccchHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhcCCCcccHH
Confidence            466666776543221   125777776666554432                    166889999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        87 DV~~AlK   93 (102)
T PTZ00015         87 DVVYALK   93 (102)
T ss_pred             HHHHHHH
Confidence            9999975

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=88.94  E-value=0.31  Score=36.96  Aligned_cols=57  Identities=28%  Similarity=0.412  Sum_probs=39.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +..-|+.||+++.|.....++|+..||+-             |.. ..++.|.||.             ++.+++.||. 
T Consensus       101 ~~~KviiI~~ad~l~~~a~NaLLK~LEep-------------p~~~~fiL~t~~~~-------------~il~TI~SRc-  153 (162)
T PF13177_consen  101 GKYKVIIIDEADKLTEEAQNALLKTLEEP-------------PENTYFILITNNPS-------------KILPTIRSRC-  153 (162)
T ss_dssp             SSSEEEEEETGGGS-HHHHHHHHHHHHST-------------TTTEEEEEEES-GG-------------GS-HHHHTTS-
T ss_pred             CCceEEEeehHhhhhHHHHHHHHHHhcCC-------------CCCEEEEEEECChH-------------HChHHHHhhc-
Confidence            45679999999999999999999999973             222 3344445553             3788889998 


Q ss_pred             EEEEe
Q psy7187          88 MIFII   92 (214)
Q Consensus        88 L~~~~   92 (214)
                      ..+.+
T Consensus       154 ~~i~~  158 (162)
T PF13177_consen  154 QVIRF  158 (162)
T ss_dssp             EEEEE
T ss_pred             eEEec
Confidence            55544

...

>TIGR03689 pup_AAA proteasome ATPase

Probab=88.85  E-value=0.57  Score=42.20  Aligned_cols=67  Identities=21%  Similarity=0.252  Sum_probs=42.5

Q ss_pred             CceEeeccCCCCCH------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          11 GGVVCIDEFDKMRE------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..|+|+||++.+-.            ..+..|+..|+.         ...  ..+..||||+|....            |
T Consensus       290 p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDg---------l~~--~~~ViVI~ATN~~d~------------L  346 (512)
T TIGR03689       290 PVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDG---------VES--LDNVIVIGASNREDM------------I  346 (512)
T ss_pred             CceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcc---------ccc--CCceEEEeccCChhh------------C
Confidence            35899999997621            123456665542         110  125788999998633            7


Q ss_pred             CCCCCC--cccEEEEecCCCCcccc
Q psy7187          79 MPTILS--RFDMIFIIKDEHDETRD  101 (214)
Q Consensus        79 ~~~lld--RFDL~~~~~~~~~~~~d  101 (214)
                      .++|+.  |||..+.+.. ++.+..
T Consensus       347 DpALlRpGRfD~~I~~~~-Pd~e~r  370 (512)
T TIGR03689       347 DPAILRPGRLDVKIRIER-PDAEAA  370 (512)
T ss_pred             CHhhcCccccceEEEeCC-CCHHHH
Confidence            888886  9998877653 444333

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

>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]

Probab=88.79  E-value=4.3  Score=26.17  Aligned_cols=48  Identities=21%  Similarity=0.204  Sum_probs=40.3

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .++.++..++......                    .+..++..|...|.-..|.++++.|+..|+++
T Consensus        27 ris~~a~~~L~~~~E~--------------------~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~   74 (75)
T PF00125_consen   27 RISSEALVALQSVLEY--------------------LLVEILEEAGNLARHAKRKTITPRDIQLAVRI   74 (75)
T ss_dssp             EECHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred             ccccccchhhhhhhhh--------------------hhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence            6788888888766533                    16688999999999999999999999999875

Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....

>KOG0989|consensus

Probab=88.26  E-value=2  Score=36.13  Aligned_cols=51  Identities=22%  Similarity=0.380  Sum_probs=38.2

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      .|+.+||.+.|+.+.+.+|+..||.-.-           .++|.+|..              |-.+|+.|+.||.-
T Consensus       131 KiiIlDEcdsmtsdaq~aLrr~mE~~s~-----------~trFiLIcn--------------ylsrii~pi~SRC~  181 (346)
T KOG0989|consen  131 KIIILDECDSMTSDAQAALRRTMEDFSR-----------TTRFILICN--------------YLSRIIRPLVSRCQ  181 (346)
T ss_pred             eEEEEechhhhhHHHHHHHHHHHhcccc-----------ceEEEEEcC--------------ChhhCChHHHhhHH
Confidence            6889999999999999999999996211           124555542              23358899999874

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=88.23  E-value=5.4  Score=26.13  Aligned_cols=48  Identities=21%  Similarity=0.119  Sum_probs=38.9

Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ...++.+.+.+.+.+.                    +.+..|.+.+..+|...+|..++..||..|+.
T Consensus        22 ~~~~~sale~ltdi~~--------------------~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~   69 (77)
T smart00576       22 DSFQESALETLTDILQ--------------------SYIQELGRTAHSYAELAGRTEPNLGDVVLALE   69 (77)
T ss_pred             cccCHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            3467788888877653                    34677889999999999999999999999864

subdomain of archael histone-like transcription factors

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

Probab=88.04  E-value=6.9  Score=35.04  Aligned_cols=63  Identities=22%  Similarity=0.293  Sum_probs=41.4

Q ss_pred             CCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      .-.|+|+||++.+-+           .+...|+..|+...-    .       ....|+||+|....            +
T Consensus       335 ~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~----~-------~~v~vi~aTN~p~~------------l  391 (494)
T COG0464         335 APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEK----A-------EGVLVIAATNRPDD------------L  391 (494)
T ss_pred             CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCc----c-------CceEEEecCCCccc------------c
Confidence            357999999998543           355566666642111    1       12668999998644            6


Q ss_pred             CCCCCC--cccEEEEecCC
Q psy7187          79 MPTILS--RFDMIFIIKDE   95 (214)
Q Consensus        79 ~~~lld--RFDL~~~~~~~   95 (214)
                      .++++-  |||-.+.+..+
T Consensus       392 d~a~lR~gRfd~~i~v~~p  410 (494)
T COG0464         392 DPALLRPGRFDRLIYVPLP  410 (494)
T ss_pred             CHhhcccCccceEeecCCC
Confidence            677777  99988877543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=87.85  E-value=2.8  Score=37.12  Aligned_cols=24  Identities=13%  Similarity=0.185  Sum_probs=15.1

Q ss_pred             CceEeeccCCCCCH--HHHHHHHHhh
Q psy7187          11 GGVVCIDEFDKMRE--DDRVAIHEAM   34 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--~~~~~L~e~m   34 (214)
                      --+++|||+..+..  ..+..|...+
T Consensus       195 ~dvLlIDDi~~l~~~~~~q~elf~~~  220 (440)
T PRK14088        195 VDVLLIDDVQFLIGKTGVQTELFHTF  220 (440)
T ss_pred             CCEEEEechhhhcCcHHHHHHHHHHH
Confidence            45899999997632  2334454444

>PRK04195 replication factor C large subunit; Provisional

Probab=87.82  E-value=20  Score=32.16  Aligned_cols=27  Identities=22%  Similarity=0.345  Sum_probs=21.5

Q ss_pred             CCceEeeccCCCCCH----HHHHHHHHhhhc
Q psy7187          10 DGGVVCIDEFDKMRE----DDRVAIHEAMEQ   36 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~----~~~~~L~e~me~   36 (214)
                      .+.|++|||++.+..    .....|+..|+.
T Consensus        98 ~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~  128 (482)
T PRK04195         98 RRKLILLDEVDGIHGNEDRGGARAILELIKK  128 (482)
T ss_pred             CCeEEEEecCcccccccchhHHHHHHHHHHc
Confidence            567999999999876    456788888863

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=87.29  E-value=0.78  Score=35.34  Aligned_cols=28  Identities=25%  Similarity=0.423  Sum_probs=25.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~   36 (214)
                      +...|++|||++.|+++.++.|+..||+
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~  122 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEE  122 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcC
Confidence            5667999999999999999999999986

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=86.85  E-value=1.3  Score=31.84  Aligned_cols=48  Identities=10%  Similarity=-0.035  Sum_probs=37.9

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .+++.+...|.++.                    -|..+.+++=|...|+-.+|.+|+.+||+.|+..
T Consensus        18 ~~~~~v~~~Lle~~--------------------~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~   65 (117)
T cd07979          18 EYEPRVINQLLEFA--------------------YRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS   65 (117)
T ss_pred             ccCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            46777766665543                    2446688999999999999999999999999863

The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi

>KOG2035|consensus

Probab=86.05  E-value=2.3  Score=35.36  Aligned_cols=61  Identities=30%  Similarity=0.467  Sum_probs=45.8

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      .|+.|-|.|++..+.+.+|+..||.-             -..|-+|-.+|...            ++-+|+-||. |.+-
T Consensus       129 Kvvvi~ead~LT~dAQ~aLRRTMEkY-------------s~~~RlIl~cns~S------------riIepIrSRC-l~iR  182 (351)
T KOG2035|consen  129 KVVVINEADELTRDAQHALRRTMEKY-------------SSNCRLILVCNSTS------------RIIEPIRSRC-LFIR  182 (351)
T ss_pred             EEEEEechHhhhHHHHHHHHHHHHHH-------------hcCceEEEEecCcc------------cchhHHhhhe-eEEe
Confidence            57899999999999999999999952             22466666666632            3778999998 7776


Q ss_pred             ecCCCCc
Q psy7187          92 IKDEHDE   98 (214)
Q Consensus        92 ~~~~~~~   98 (214)
                      +.-++++
T Consensus       183 vpaps~e  189 (351)
T KOG2035|consen  183 VPAPSDE  189 (351)
T ss_pred             CCCCCHH
Confidence            6655443

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

Probab=85.83  E-value=0.44  Score=40.28  Aligned_cols=62  Identities=21%  Similarity=0.338  Sum_probs=43.7

Q ss_pred             eeccCCceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEE-ecceEEEEeCceEEEEeecCC---CCCC
Q psy7187           6 MVLADGGVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIA-KAGITTTLNSRCSVLAAANSV---FGRW   67 (214)
Q Consensus         6 l~la~~Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~-~~g~~~~lpa~~~viaa~Np~---~g~~   67 (214)
                      +..|.+||++||||+++..              .++++|+..||--..+|. ++|.... .-+|.-+-|+|-.   .|-|
T Consensus       158 V~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP-~Qe~iqvDT~NILFIcgGAF  236 (408)
T COG1219         158 VERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHP-QQEFIQVDTSNILFICGGAF  236 (408)
T ss_pred             HHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCC-ccceEEEcccceeEEecccc
Confidence            4578999999999999765              378999999986666775 3443322 2257777777774   3455


Q ss_pred             C
Q psy7187          68 D   68 (214)
Q Consensus        68 ~   68 (214)
                      +
T Consensus       237 ~  237 (408)
T COG1219         237 A  237 (408)
T ss_pred             c
Confidence            4

>KOG0738|consensus

Probab=85.52  E-value=3  Score=36.37  Aligned_cols=71  Identities=24%  Similarity=0.316  Sum_probs=44.2

Q ss_pred             ceEeeccCCCC------------CHHHHHHHHHhhhcCeEEEEecceEEEE--eCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKM------------REDDRVAIHEAMEQQTISIAKAGITTTL--NSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~------------~~~~~~~L~e~me~~~i~i~~~g~~~~l--pa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      .+.|||||+-+            ...+++-|+.-|+         |..-++  -....|+||+|--+.            
T Consensus       306 StIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmD---------G~~~t~e~~k~VmVLAATN~PWd------------  364 (491)
T KOG0738|consen  306 STIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMD---------GVQGTLENSKVVMVLAATNFPWD------------  364 (491)
T ss_pred             ceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhh---------ccccccccceeEEEEeccCCCcc------------
Confidence            46899999854            3356777877775         322222  224789999998654            


Q ss_pred             CCCCCCCcccEEEEecCCCCccccHHH
Q psy7187          78 FMPTILSRFDMIFIIKDEHDETRDITL  104 (214)
Q Consensus        78 l~~~lldRFDL~~~~~~~~~~~~d~~i  104 (214)
                      |..+|+-||.=.+++. -++.+....+
T Consensus       365 iDEAlrRRlEKRIyIP-LP~~~~R~~L  390 (491)
T KOG0738|consen  365 IDEALRRRLEKRIYIP-LPDAEARSAL  390 (491)
T ss_pred             hHHHHHHHHhhheeee-CCCHHHHHHH
Confidence            7788888887333332 2344444443

>PRK05642 DNA replication initiation factor; Validated

Probab=84.90  E-value=17  Score=29.16  Aligned_cols=49  Identities=20%  Similarity=0.194  Sum_probs=30.3

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++.++|.+.+                 .=+.|.++.++..=. .+.+.....||..=+++++.
T Consensus       185 ~l~~ev~~~L~~~~-----------------~~d~r~l~~~l~~l~-~~~l~~~~~it~~~~~~~L~  233 (234)
T PRK05642        185 HLTDEVGHFILTRG-----------------TRSMSALFDLLERLD-QASLQAQRKLTIPFLKETLG  233 (234)
T ss_pred             CCCHHHHHHHHHhc-----------------CCCHHHHHHHHHHHH-HHHHHcCCcCCHHHHHHHhc
Confidence            57889988886643                 125666655554333 24444435688888887764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=83.82  E-value=1.6  Score=30.59  Aligned_cols=65  Identities=15%  Similarity=0.200  Sum_probs=38.2

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      +++++||+..+.......+......     ..............+++++|+. ..          ..+..+..|+|..+.
T Consensus        80 ~viiiDei~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~i~~~~~~-~~----------~~~~~~~~~~~~~~~  143 (148)
T smart00382       80 DVLILDEITSLLDAEQEALLLLLEE-----LRLLLLLKSEKNLTVILTTNDE-KD----------LGPALLRRRFDRRIV  143 (148)
T ss_pred             CEEEEECCcccCCHHHHHHHHhhhh-----hHHHHHHHhcCCCEEEEEeCCC-cc----------CchhhhhhccceEEE
Confidence            8999999999988766654433211     0011112224568999999961 11          144555557776655


Q ss_pred             e
Q psy7187          92 I   92 (214)
Q Consensus        92 ~   92 (214)
                      +
T Consensus       144 ~  144 (148)
T smart00382      144 L  144 (148)
T ss_pred             e
Confidence            4

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.

>smart00417 H4 Histone H4

Probab=82.52  E-value=6.7  Score=25.69  Aligned_cols=61  Identities=15%  Similarity=0.103  Sum_probs=42.1

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      -++...+++...-+-   --.+|..+.+.+.+....                    -++.+++-|-+.|.-.+|.+|+.+
T Consensus        13 gI~k~~IrRLaRr~G---vkRIS~~~y~elr~vle~--------------------~l~~I~rdav~~a~ha~RKTV~~~   69 (74)
T smart00417       13 GITKPAIRRLARRGG---VKRISGLIYDETRNVLKS--------------------FLENVVRDAVTYTEHARRKTVTAM   69 (74)
T ss_pred             CCCHHHHHHHHHHcC---cchhhHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhcCCCcccHH
Confidence            356666666543221   124677666666555432                    166789999999999999999999


Q ss_pred             HHHH
Q psy7187         206 HVTE  209 (214)
Q Consensus       206 Dv~~  209 (214)
                      ||.-
T Consensus        70 DV~~   73 (74)
T smart00417       70 DVVY   73 (74)
T ss_pred             Hhee
Confidence            9864

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=82.42  E-value=1.9  Score=36.61  Aligned_cols=55  Identities=24%  Similarity=0.359  Sum_probs=41.7

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+..-|++||+.++|+....++|+..||+-.             .. +.|+.|.||.             .|.+.+.||.
T Consensus       104 ~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp-------------~~~~fiL~t~~~~-------------~ll~TI~SRc  157 (328)
T PRK05707        104 LGGRKVVLIEPAEAMNRNAANALLKSLEEPS-------------GDTVLLLISHQPS-------------RLLPTIKSRC  157 (328)
T ss_pred             cCCCeEEEECChhhCCHHHHHHHHHHHhCCC-------------CCeEEEEEECChh-------------hCcHHHHhhc
Confidence            3567899999999999999999999999721             11 3445565663             2778999998


Q ss_pred             cE
Q psy7187          87 DM   88 (214)
Q Consensus        87 DL   88 (214)
                      -.
T Consensus       158 ~~  159 (328)
T PRK05707        158 QQ  159 (328)
T ss_pred             ee
Confidence            44

>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]

Probab=82.07  E-value=12  Score=25.52  Aligned_cols=68  Identities=21%  Similarity=0.188  Sum_probs=47.9

Q ss_pred             CCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCC
Q psy7187         123 SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFA  202 (214)
Q Consensus       123 ~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V  202 (214)
                      ....++...+++.+.-+-.   ..++.+|.+.+.+...+                    -++.|.+-|-..|+=.+|.+|
T Consensus        16 ~~~~Lp~apv~Ri~r~~~~---~Rvs~~A~~~l~~~~e~--------------------~~~~i~~~A~~~A~ha~RKTV   72 (91)
T COG2036          16 TDLLLPKAPVRRILRKAGA---ERVSSSAIEELQEALEE--------------------YLEEIAEDAVELAEHAKRKTV   72 (91)
T ss_pred             hhhhcCchHHHHHHHHHhH---HHhhHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCee
Confidence            3445666666665533322   25788887777665432                    256788889999999999999


Q ss_pred             cHHHHHHHHhc
Q psy7187         203 IDSHVTEALRL  213 (214)
Q Consensus       203 ~~~Dv~~Ai~l  213 (214)
                      +.+||..|+..
T Consensus        73 ~~~DI~la~~~   83 (91)
T COG2036          73 KAEDIKLALKR   83 (91)
T ss_pred             cHHHHHHHHHH
Confidence            99999998753

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

Probab=81.62  E-value=2.2  Score=37.09  Aligned_cols=67  Identities=10%  Similarity=0.241  Sum_probs=39.3

Q ss_pred             ceEeeccCCCCCHH-----------H-HHHHHHhhhcC-eEEEEecce--EEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          12 GVVCIDEFDKMRED-----------D-RVAIHEAMEQQ-TISIAKAGI--TTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        12 Gv~~iDE~~~~~~~-----------~-~~~L~e~me~~-~i~i~~~g~--~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      -|+|||||+.+-..           . ...|+..|+.- .+++  .|.  ...-..+..||||+|--.-           
T Consensus       214 cVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l--~G~w~~~~~~~~V~VIaTTNrpd~-----------  280 (413)
T PLN00020        214 SCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSL--GGDWREKEEIPRVPIIVTGNDFST-----------  280 (413)
T ss_pred             eEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccc--cccccccccCCCceEEEeCCCccc-----------
Confidence            48999999964321           1 13566666531 1222  221  1122345777888876432           


Q ss_pred             cCCCCCCC--cccEEEEe
Q psy7187          77 DFMPTILS--RFDMIFII   92 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~   92 (214)
                       |.++|+-  |||-.+.+
T Consensus       281 -LDpALlRpGRfDk~i~l  297 (413)
T PLN00020        281 -LYAPLIRDGRMEKFYWA  297 (413)
T ss_pred             -CCHhHcCCCCCCceeCC
Confidence             7889988  99987753

>TIGR02653 Lon_rel_chp conserved hypothetical protein

Probab=81.37  E-value=14  Score=34.44  Aligned_cols=37  Identities=16%  Similarity=0.179  Sum_probs=29.6

Q ss_pred             cccCHHHHHHHHHHHHHHhcc-CCCCCCcHHHHHHHHh
Q psy7187         176 IPITVRQLEAIVRIAESMAKM-QLEPFAIDSHVTEALR  212 (214)
Q Consensus       176 ~~~s~R~l~~lirlA~a~A~l-~~r~~V~~~Dv~~Ai~  212 (214)
                      ..++.|-..++.|+.-..-|| .=.-.++.+|++++++
T Consensus       401 ~~~~~RD~~aV~kt~SgllKLl~P~~~~~~ee~e~~l~  438 (675)
T TIGR02653       401 NNLNQRDVIAVRKTVSGLLKLLYPDGEYTKDDVRECLT  438 (675)
T ss_pred             CCCchhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence            357889999999999999988 4456788999887764

This model describes a protein family of unknown function, about 690 residues in length, in which some members show C-terminal sequence similarity to Pfam model pfam05362, which is the Lon protease C-terminal proteolytic domain, from MEROPS family S16. However, the annotated catalytic sites of E. coli Lon protease are not conserved in members of this family. Members have a motif GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif GxxGxGK[ST].

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=80.21  E-value=3  Score=35.77  Aligned_cols=56  Identities=32%  Similarity=0.399  Sum_probs=40.0

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      .-|++|||++.|+....++|+..||+-.             .+ ..|+.+.+|.  .           +.+.+.||+ ..
T Consensus       142 ~rVviIDeAd~l~~~aanaLLk~LEEpp-------------~~~~fiLit~~~~--~-----------llptIrSRc-~~  194 (351)
T PRK09112        142 WRIVIIDPADDMNRNAANAILKTLEEPP-------------ARALFILISHSSG--R-----------LLPTIRSRC-QP  194 (351)
T ss_pred             ceEEEEEchhhcCHHHHHHHHHHHhcCC-------------CCceEEEEECChh--h-----------ccHHHHhhc-cE
Confidence            3599999999999999999999998632             22 2333345552  2           668899998 45


Q ss_pred             EEec
Q psy7187          90 FIIK   93 (214)
Q Consensus        90 ~~~~   93 (214)
                      +.+.
T Consensus       195 i~l~  198 (351)
T PRK09112        195 ISLK  198 (351)
T ss_pred             EEec
Confidence            5444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	214
3f9v_A	595	Crystal Structure Of A Near Full-Length Archaeal Mc		2e-45
3f8t_A	506	Crystal Structure Analysis Of A Full-Length Mcm Hom		8e-16

>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm: Functional Insights For An Aaa+ Hexameric Helicase Length = 595

Iteration: 1
 Score =  178 bits (451), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 99/200 (49%), Positives = 135/200 (67%), Gaps = 10/200 (5%)
Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +E GA+VLADGG+  IDE DKMR++DRVAIHEAMEQQT+SIAKAGI   LN+R +V+AA 
Sbjct: 382 LEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAG 441
Query: 61  NSVFGRW-DDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N  FGR+  +     NI+  PTILSRFD+IFI+KD+  E +D  LA +I+ VH  +G+  
Sbjct: 442 NPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGE-QDRELANYILDVH--SGK-- 496
Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPIT 179
             ++   + +  L+KYI Y R    P++T EA   + + +V MR  S E  +    I IT
Sbjct: 497 --STKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSP--ILIT 552
Query: 180 VRQLEAIVRIAESMAKMQLE 199
            RQLEA++RI+E+ AKM L+
Sbjct: 553 PRQLEALIRISEAYAKMALK 572

>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog From Methanopyrus Kandleri Length = 506

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 65/201 (32%), Positives = 102/201 (50%), Gaps = 27/201 (13%)
Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +  GA VLADGG++ +D  +   E  R A+ EAM++ T+++   GI   LN+RC+VLAA 
Sbjct: 291 LRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTV--DGI--ALNARCAVLAAI 346
Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           N    +W        ID     LS FD+I                   + V    G+  +
Sbjct: 347 NP-GEQWPSDPPIARIDLDQDFLSHFDLIA-----------------FLGVDPRPGEPEE 388
Query: 121 VASDGELP-LPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKED-GEKKLNIP 177
              D E+P   +L++Y+ Y  R    P LT EA ++L++ Y   R   +E  G     +P
Sbjct: 389 --QDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLP 446
Query: 178 ITVRQLEAIVRIAESMAKMQL 198
           +T RQLE++ R+A++ A+M+L
Sbjct: 447 VTRRQLESVERLAKAHARMRL 467

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	214
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	1e-114
3f8t_A	506	Predicted ATPase involved in replication control,	4e-89
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	2e-04

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus} Length = 595

 Score =  337 bits (866), Expect = e-114
 Identities = 99/215 (46%), Positives = 135/215 (62%), Gaps = 10/215 (4%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +E GA+VLADGG+  IDE DKMR++DRVAIHEAMEQQT+SIAKAGI   LN+R +V+AA 
Sbjct: 382 LEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAG 441

Query: 61  NSVFGRWDDTKG-EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N  FGR+   +    NI+  PTILSRFD+IFI+KD+  E +D  LA +I+ VH       
Sbjct: 442 NPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGE-QDRELANYILDVHS------ 494

Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPIT 179
             ++   + +  L+KYI Y R    P++T EA   + + +V MR  S E  +    I IT
Sbjct: 495 GKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSP--ILIT 552

Query: 180 VRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
            RQLEA++RI+E+ AKM L+          A+ + 
Sbjct: 553 PRQLEALIRISEAYAKMALKAEVTREDAERAINIM 587

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19} Length = 506

 Score =  270 bits (691), Expect = 4e-89
 Identities = 61/217 (28%), Positives = 97/217 (44%), Gaps = 27/217 (12%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
           +  GA VLADGG++ +D  +   E  R A+ EAM++ T+++        LN+RC+VLAA 
Sbjct: 291 LRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGI----ALNARCAVLAAI 346

Query: 61  NSVFGRWDDTKG-EQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
           N   G    +      ID     LS FD+I  +  +            +           
Sbjct: 347 N--PGEQWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQDTEV----------- 393

Query: 120 DVASDGELPLPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKED-GEKKLNIP 177
                      +L++Y+ Y  R    P LT EA ++L++ Y   R   +E  G     +P
Sbjct: 394 -------PSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLP 446

Query: 178 ITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF 214
           +T RQLE++ R+A++ A+M+L        V  A  L 
Sbjct: 447 VTRRQLESVERLAKAHARMRLSDDVEPEDVDIAAELV 483

>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 Length = 350

 Score = 40.9 bits (96), Expect = 2e-04
 Identities = 15/94 (15%), Positives = 35/94 (37%), Gaps = 11/94 (11%)

Query: 4   GAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV 63
           G +  A+ G + IDE + + +     + +  +     + + G++    +R  ++ + N  
Sbjct: 138 GLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPE 197

Query: 64  FGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHD 97
            G              P +L RF +   +    D
Sbjct: 198 EGDLR-----------PQLLDRFGLSVEVLSPRD 220

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	214
3f8t_A	506	Predicted ATPase involved in replication control,	100.0
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	100.0
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.85
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.82
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.77
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.67
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.08
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.06
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.02
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.9
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.88
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.76
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.75
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.73
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.7
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.66
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.58
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.47
3pvs_A	447	Replication-associated recombination protein A; ma	98.45
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.41
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.38
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.27
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.27
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.27
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.25
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.14
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.11
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.06
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.05
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.04
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.98
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.87
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.8
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.73
3co5_A	143	Putative two-component system transcriptional RES	97.71
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.67
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.65
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.64
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.61
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.55
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.54
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.54
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.52
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.51
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.4
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.38
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.35
3bos_A	242	Putative DNA replication factor; P-loop containing	97.22
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.19
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.03
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.99
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.99
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.97
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.9
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.89
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.83
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.8
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.79
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.78
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.75
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.71
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.67
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.63
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.58
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.33
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.3
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.28
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.26
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.22
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.21
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.14
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.04
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.96
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.64
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	94.2
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	92.59
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	92.43
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	92.39
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	92.2
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	92.16
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.02
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	91.73
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	91.06
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	91.03
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	90.88
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	90.41
1taf_A	68	TFIID TBP associated factor 42; transcription init	90.4
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	90.3
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	89.71
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	88.96
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	88.9
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	88.62
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	86.86
1taf_B	70	TFIID TBP associated factor 62; transcription init	86.2
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	85.28
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	85.28
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	85.18
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	84.93
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	84.83
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	84.5
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	84.43
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	84.4
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	82.98
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	82.47
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	82.45
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	80.23

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=100.00  E-value=5.8e-45  Score=313.99  Aligned_cols=191  Identities=32%  Similarity=0.497  Sum_probs=157.9

Q ss_pred             CCcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187           1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus         1 ~~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      ++||++++|||||||+|||++|+++++++|+|+||+|+|+|.  |.  ++|++|+||||+|||+ +|+++++.++++||+
T Consensus       291 ~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~--G~--~lparf~VIAA~NP~~-~yd~~~s~~~~~Lp~  365 (506)
T 3f8t_A          291 LRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVD--GI--ALNARCAVLAAINPGE-QWPSDPPIARIDLDQ  365 (506)
T ss_dssp             EEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEET--TE--EEECCCEEEEEECCCC---CCSCGGGGCCSCH
T ss_pred             cCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEEC--CE--EcCCCeEEEEEeCccc-ccCCCCCccccCCCh
Confidence            379999999999999999999999999999999999999996  76  9999999999999998 777666568899999


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhH-hccCCCCCHHHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCR-MRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar-~~~~p~ls~ea~~~i~~~y  159 (214)
                      ++||||||++.+.|.++.+.|.+                  .....++.+.+++|+.||| .++.|.+++++.++|.++|
T Consensus       366 alLDRFDLi~i~~d~pd~e~d~e------------------~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~y  427 (506)
T 3f8t_A          366 DFLSHFDLIAFLGVDPRPGEPEE------------------QDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWY  427 (506)
T ss_dssp             HHHTTCSEEEETTC--------------------------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHHH
T ss_pred             HHhhheeeEEEecCCCChhHhhc------------------ccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHHH
Confidence            99999999999999998776631                  1235689999999999999 6778999999999999999


Q ss_pred             HHHhcCCCcC-CCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         160 VLMRNGSKED-GEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       160 ~~~r~~~~~~-~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      ..+|...... .......++|+|++++|+|+|+|+|+|++|++|+++||.+|++||
T Consensus       428 ~~tR~~~~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~gR~~V~~eDV~~Ai~L~  483 (506)
T 3f8t_A          428 ETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSDDVEPEDVDIAAELV  483 (506)
T ss_dssp             HHHHHHHHHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHhcCcccccccccccccccHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHHHHH
Confidence            9999731100 011235789999999999999999999999999999999999885

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=100.00  E-value=9.2e-40  Score=293.67  Aligned_cols=204  Identities=49%  Similarity=0.731  Sum_probs=186.0

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFMP   80 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~~   80 (214)
                      +||.+.+|++|||||||+++++++++++|+++||+|++++.++|...++|+++.||||+||.+|+|+..++ .+|+.|++
T Consensus       383 ~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~  462 (595)
T 3f9v_A          383 EAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPP  462 (595)
T ss_dssp             EECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCS
T ss_pred             cCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999998877 88999999


Q ss_pred             CCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          81 TILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        81 ~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +|+||||+++.+.+.++.+ +..|++|++..+...      .....++.+.+++|+.||++.+.|.+++++.++|.++|.
T Consensus       463 aLl~RFDl~~~~~~~~~~e-~~~i~~~il~~~~~~------~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~l~~~y~  535 (595)
T 3f9v_A          463 TILSRFDLIFILKDQPGEQ-DRELANYILDVHSGK------STKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFV  535 (595)
T ss_dssp             SSGGGCSCCEEECCTTHHH-HHHHHHHHHTTTCCC------SSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHHHHHHHT
T ss_pred             HHHhhCeEEEEeCCCCCHH-HHHHHHHHHHHhhcc------ccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            9999999999999999888 999999998866431      245678999999999999998899999999999999999


Q ss_pred             HHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         161 LMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       161 ~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                      .+|+.....  .....++|+|++++++|+|+|+|++++++.|+.+||.+|++|+
T Consensus       536 ~lR~~~~~~--~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai~l~  587 (595)
T 3f9v_A          536 EMRKKSSET--PDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERAINIM  587 (595)
T ss_dssp             TSSCSCCBC--SSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHHHHH
T ss_pred             HHHHhhccC--CCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHH
Confidence            998876532  1124789999999999999999999999999999999999874

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.85  E-value=4.9e-21  Score=160.87  Aligned_cols=184  Identities=14%  Similarity=0.158  Sum_probs=143.7

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      .+|.+..|++||+||||++.++.+.++.|+++|++|.+.+.+.|.....|.++.+++|+||+.+.           ++++
T Consensus       136 ~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~-----------l~~~  204 (350)
T 1g8p_A          136 EPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGD-----------LRPQ  204 (350)
T ss_dssp             ECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCC-----------CCHH
T ss_pred             cCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCC-----------CCHH
Confidence            36778889999999999999999999999999999999999999999999999999999997654           8899


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYV  160 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~  160 (214)
                      |++||++.+.+...++.+....|..+.+....... .  .......+...+++++.+++.... ..+++++.++|.+++.
T Consensus       205 L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~-~--~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~~~~l~~~~~  281 (350)
T 1g8p_A          205 LLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPK-A--FLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCI  281 (350)
T ss_dssp             HHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHH-H--HHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHH
T ss_pred             HHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCch-h--hccccccchHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            99999998888766565555455555443211000 0  000001134467778877765332 3789999999998875


Q ss_pred             HHhcCCCcCCCCcccccc-CHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         161 LMRNGSKEDGEKKLNIPI-TVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       161 ~~r~~~~~~~~~~~~~~~-s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      .              .+. ++|.+..+++.|.++|.+++++.|+.+|+.+|+.+
T Consensus       282 ~--------------~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~~~  321 (350)
T 1g8p_A          282 A--------------LGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVATM  321 (350)
T ss_dssp             H--------------SSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHHH
T ss_pred             H--------------hCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence            4              233 78999999999999999999999999999999864

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.82  E-value=5.4e-19  Score=147.85  Aligned_cols=184  Identities=14%  Similarity=0.134  Sum_probs=136.3

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      +||+||||++.++++.++.|+++|+++.+++  .|..+.+|.++.|+||+||+...       ....++++|+|||++.+
T Consensus       110 ~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~--~g~~~~~~~~~~viat~np~~~~-------~~~~l~~~l~~Rf~~~i  180 (331)
T 2r44_A          110 SNFILADEVNRSPAKVQSALLECMQEKQVTI--GDTTYPLDNPFLVLATQNPVEQE-------GTYPLPEAQVDRFMMKI  180 (331)
T ss_dssp             SSEEEEETGGGSCHHHHHHHHHHHHHSEEEE--TTEEEECCSSCEEEEEECTTCCS-------CCCCCCHHHHTTSSEEE
T ss_pred             ccEEEEEccccCCHHHHHHHHHHHhcCceee--CCEEEECCCCEEEEEecCCCccc-------CcccCCHHHHhheeEEE
Confidence            5899999999999999999999999999998  78899999999999999998421       12248999999999877


Q ss_pred             EecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCC
Q psy7187          91 IIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDG  170 (214)
Q Consensus        91 ~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~  170 (214)
                      .+..+ +.+...    .++..+......  ......++.+.+......++.   ..+++++.+++.+.+..+|.......
T Consensus       181 ~i~~p-~~~~~~----~il~~~~~~~~~--~~~~~~~~~~~i~~~~~~~~~---v~~~~~~~~~i~~~~~~~r~~~~~~~  250 (331)
T 2r44_A          181 HLTYL-DKESEL----EVMRRVSNMNFN--YQVQKIVSKNDVLEIRNEINK---VTISESLEKYIIELVFATRFPAEYGL  250 (331)
T ss_dssp             ECCCC-CHHHHH----HHHHHHHCTTCC--CCCCCCSCHHHHHHHHHHHHT---CBCCHHHHHHHHHHHHHHHSGGGGTC
T ss_pred             EcCCC-CHHHHH----HHHHhccccCcc--hhccccCCHHHHHHHHHHhcc---CCCCHHHHHHHHHHHHHHhccccccc
Confidence            76543 333322    344433322111  112344566666666555543   36899999999999988776531000


Q ss_pred             ---CCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         171 ---EKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       171 ---~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                         ......++|+|.+..++++|+++|++++++.|+++||.+|+..
T Consensus       251 ~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~~  296 (331)
T 2r44_A          251 EAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAYD  296 (331)
T ss_dssp             HHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHHH
T ss_pred             cccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence               0001246799999999999999999999999999999998753

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.77  E-value=3.2e-18  Score=150.56  Aligned_cols=174  Identities=10%  Similarity=0.052  Sum_probs=126.8

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      ..+|+|||||+++++++++.|+++|+++.+++  .|..+.+|.+| +|+|+||...         ...+..+++|||++.
T Consensus       109 ~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i--~G~~~~~~~~~-iI~ATN~lpe---------~~~~~~aLldRF~~~  176 (500)
T 3nbx_X          109 EAEIVFLDEIWKAGPAILNTLLTAINERQFRN--GAHVEKIPMRL-LVAASNELPE---------ADSSLEALYDRMLIR  176 (500)
T ss_dssp             GCSEEEEESGGGCCHHHHHHHHHHHHSSEEEC--SSSEEECCCCE-EEEEESSCCC---------TTCTTHHHHTTCCEE
T ss_pred             cceeeeHHhHhhhcHHHHHHHHHHHHHHhccC--CCCcCCcchhh-hhhccccCCC---------ccccHHHHHHHHHHH
Confidence            34589999999999999999999999999998  88899999997 5667787421         112557999999776


Q ss_pred             EEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcC
Q psy7187          90 FIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED  169 (214)
Q Consensus        90 ~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~  169 (214)
                      +.+..+...+...    .|+..+....... ......++.+.+..+...++.   ..+++++.+++.+.+..+|....  
T Consensus       177 i~v~~p~~~ee~~----~IL~~~~~~~~~~-~~~~~~~~~e~l~~~~~~~~~---v~v~d~v~e~i~~l~~~lr~~r~--  246 (500)
T 3nbx_X          177 LWLDKVQDKANFR----SMLTSQQDENDNP-VPDALQVTDEEYERWQKEIGE---ITLPDHVFELIFMLRQQLDKLPD--  246 (500)
T ss_dssp             EECCSCCCHHHHH----HHHTCCCCTTSCC-SCTTTSBCHHHHHHHHHHHTT---CBCCHHHHHHHHHHHHHHHHCSS--
T ss_pred             HHHHHhhhhhhHH----HHHhcccccCCCC-CCccceecHHHHHHHHhcCCc---ccCchHHHHHHHHHHHHhhcCCC--
Confidence            7664333222222    2333221111010 112345678888888877765   36899999999998876665442  


Q ss_pred             CCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHH
Q psy7187         170 GEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEA  210 (214)
Q Consensus       170 ~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~A  210 (214)
                           ..++|+|.+++++++|+|+|.+++|+.|+++||..|
T Consensus       247 -----~~~iS~R~~~~llr~A~A~A~l~gr~~Vt~eDv~~a  282 (500)
T 3nbx_X          247 -----APYVSDRRWKKAIRLLQASAFFSGRSAVAPVDLILL  282 (500)
T ss_dssp             -----SCCCCHHHHHHHHHHHHHHHHHTTCSBCCGGGGGGG
T ss_pred             -----CCccchhHHHHHHHHHHHHHhhcCCccccchHHHHH
Confidence                 246799999999999999999999999999999843

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.67  E-value=3.7e-17  Score=147.28  Aligned_cols=167  Identities=22%  Similarity=0.266  Sum_probs=123.5

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecce----------EEEEeCceEEEEeecCCCCCCCCCc
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGI----------TTTLNSRCSVLAAANSVFGRWDDTK   71 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~----------~~~lpa~~~viaa~Np~~g~~~~~~   71 (214)
                      ++|.+..|++|+|||||++.+++..++.|+++|++|++++.  |.          ...+|+++.||+|+||..       
T Consensus       193 ~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~--g~~~~~~~~~l~~~~~p~~~~vI~atn~~~-------  263 (604)
T 3k1j_A          193 EPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPIT--GQSEMSSGAMVRTEPVPCDFVLVAAGNLDT-------  263 (604)
T ss_dssp             ECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCB--CSCTTSGGGGCBCSCEECCCEEEEEECHHH-------
T ss_pred             cCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEec--ccccccccccCCCCccceeEEEEEecCHHH-------
Confidence            57899999999999999999999999999999999999885  33          567899999999999951       


Q ss_pred             ccccccCCCCCCCccc---EEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhH-hccCCCC
Q psy7187          72 GEQNIDFMPTILSRFD---MIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCR-MRCGPRL  147 (214)
Q Consensus        72 ~~~~~~l~~~lldRFD---L~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar-~~~~p~l  147 (214)
                         ...++++|++||+   +.+.+.+..  +.......+++...                       ...++ ....|.+
T Consensus       264 ---~~~l~~~l~~R~~v~~i~i~l~~~~--~~~~~~~~~~l~~~-----------------------~~~~~~~~~~~~l  315 (604)
T 3k1j_A          264 ---VDKMHPALRSRIRGYGYEVYMRTTM--PDTIENRRKLVQFV-----------------------AQEVKRDGKIPHF  315 (604)
T ss_dssp             ---HHHSCHHHHHHHHHHSEEEECCSEE--ECCHHHHHHHHHHH-----------------------HHHHHHHCSSCCB
T ss_pred             ---HhhcCHHHHHHhhccceEeeccccc--cCCHHHHHHHHHHH-----------------------HHHHhhccCcccC
Confidence               1138899999998   445432211  11122222222211                       11111 1124679


Q ss_pred             CHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         148 THEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       148 s~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ++++...|.++|...  .+     ....+++++|.+..++|.|.++|+.++++.|+.+||.+|+.
T Consensus       316 s~eAl~~Li~~~~r~--~g-----~r~~l~~~~R~l~~llr~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          316 TKEAVEEIVREAQKR--AG-----RKGHLTLRLRDLGGIVRAAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             BHHHHHHHHHHHHHT--TC-----STTEEECCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhh--hc-----cccccccCHHHHHHHHHHHHHHHHhcCcccccHHHHHHHHH
Confidence            999999999988532  22     11235678999999999999999999999999999999975

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.08  E-value=1.8e-10  Score=92.96  Aligned_cols=156  Identities=17%  Similarity=0.190  Sum_probs=96.2

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|++|++||||++.++.+.+..|++.|+++.+  .+.|.....+.++.||+|+|+.....     .....+.+.|
T Consensus        93 ~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~--~~~g~~~~~~~~~~iI~atn~~~~~~-----~~~~~~~~~L  165 (265)
T 2bjv_A           93 PGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGEL--ERVGGSQPLQVNVRLVCATNADLPAM-----VNEGTFRADL  165 (265)
T ss_dssp             CCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEE--CCCCC--CEECCCEEEEEESSCHHHH-----HHHTSSCHHH
T ss_pred             cchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCe--ecCCCcccccCCeEEEEecCcCHHHH-----HHcCCccHHH
Confidence            4566678999999999999999999999999999975  46777777889999999999951100     0112377899


Q ss_pred             CCcccE-EEEecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDM-IFIIKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL-~~~~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      ++||+. .+.+.+..+...| ..++++.+.......                       .....|.+++++.+.|..+. 
T Consensus       166 ~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~-----------------------~~~~~~~~~~~a~~~L~~~~-  221 (265)
T 2bjv_A          166 LDALAFDVVQLPPLRERESDIMLMAEYFAIQMCREI-----------------------KLPLFPGFTERARETLLNYR-  221 (265)
T ss_dssp             HHHHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHT-----------------------TCSSCCCBCHHHHHHHHHSC-
T ss_pred             HHhhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHh-----------------------CCCcccCcCHHHHHHHHhCC-
Confidence            999974 3333322221111 223333333221110                       00011367888887775421 


Q ss_pred             HHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHH
Q psy7187         161 LMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHV  207 (214)
Q Consensus       161 ~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv  207 (214)
                                     .+-.+|.+..+++-+-..+.   ...|+.+|+
T Consensus       222 ---------------~~gn~reL~~~l~~~~~~~~---~~~i~~~~l  250 (265)
T 2bjv_A          222 ---------------WPGNIRELKNVVERSVYRHG---TSDYPLDDI  250 (265)
T ss_dssp             ---------------CTTHHHHHHHHHHHHHHHHC---CSSSCBCCC
T ss_pred             ---------------CCCCHHHHHHHHHHHHHhCC---CCcCcHHHc
Confidence                           12357888888777666554   345665554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.06  E-value=6.3e-10  Score=92.74  Aligned_cols=75  Identities=21%  Similarity=0.326  Sum_probs=57.3

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecc------eEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAG------ITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g------~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      ++++|++||||++.++.+.+..|+.+|+++.+.+..++      ....+| ++.+|+|+|+..            .++++
T Consensus       104 ~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~atn~~~------------~l~~~  170 (338)
T 3pfi_A          104 LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLP-KFTLIGATTRAG------------MLSNP  170 (338)
T ss_dssp             CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCC-CCEEEEEESCGG------------GSCHH
T ss_pred             ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCC-CeEEEEeCCCcc------------ccCHH
Confidence            57899999999999999999999999999987764322      223345 689999999842            27789


Q ss_pred             CCCcccEEEEecCC
Q psy7187          82 ILSRFDMIFIIKDE   95 (214)
Q Consensus        82 lldRFDL~~~~~~~   95 (214)
                      |++|||.++.+...
T Consensus       171 L~~R~~~~i~l~~~  184 (338)
T 3pfi_A          171 LRDRFGMQFRLEFY  184 (338)
T ss_dssp             HHTTCSEEEECCCC
T ss_pred             HHhhcCEEeeCCCc
Confidence            99999988877554

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.02  E-value=5.2e-10  Score=92.49  Aligned_cols=103  Identities=19%  Similarity=0.352  Sum_probs=72.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|++|++||||++.++.+.+..|+.+|+++.+  .+.|.....+.++.||+|+|+.-..     ......+...|
T Consensus        89 ~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~--~~~g~~~~~~~~~riI~atn~~l~~-----~v~~g~fr~~L  161 (304)
T 1ojl_A           89 EGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREV--QRVGSNQTISVDVRLIAATHRDLAE-----EVSAGRFRQDL  161 (304)
T ss_dssp             CCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBC--CBTTBCCCCBCCCEEEEEESSCHHH-----HHHHTSSCHHH
T ss_pred             cCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEe--eecCCcccccCCeEEEEecCccHHH-----HHHhCCcHHHH
Confidence            5667789999999999999999999999999999876  4678778889999999999985100     01122367889


Q ss_pred             CCcccEE-EEecCCCCcccc-HHHHHHHHHHH
Q psy7187          83 LSRFDMI-FIIKDEHDETRD-ITLAKHIMKVH  112 (214)
Q Consensus        83 ldRFDL~-~~~~~~~~~~~d-~~ia~~il~~~  112 (214)
                      ++||+.+ +.+++..+...| ..++.+.+...
T Consensus       162 ~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~  193 (304)
T 1ojl_A          162 YYRLNVVAIEMPSLRQRREDIPLLADHFLRRF  193 (304)
T ss_dssp             HHHHSSEEEECCCSGGGGGGHHHHHHHHHHHH
T ss_pred             HhhcCeeEEeccCHHHhHhhHHHHHHHHHHHH
Confidence            9999743 333332222222 34555555443

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.90  E-value=1.2e-07  Score=78.26  Aligned_cols=144  Identities=22%  Similarity=0.291  Sum_probs=94.6

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecc-----eEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAG-----ITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g-----~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      ++++|++||||++.++...+..|+..|+++.+.+.-+.     ....-+.++.+|+++|.. +.           +.++|
T Consensus        88 ~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~-~~-----------~~~~l  155 (324)
T 1hqc_A           88 LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRP-GL-----------ITAPL  155 (324)
T ss_dssp             CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCC-SS-----------CSCST
T ss_pred             ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCc-cc-----------CCHHH
Confidence            57899999999999999999999999999987763211     112223468899999875 22           77899


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~  162 (214)
                      ++||+.++.+...+ .+   .+ ..++....                          +. ....+++++.+.|..+.   
T Consensus       156 ~~R~~~~i~l~~~~-~~---e~-~~~l~~~~--------------------------~~-~~~~~~~~~~~~l~~~~---  200 (324)
T 1hqc_A          156 LSRFGIVEHLEYYT-PE---EL-AQGVMRDA--------------------------RL-LGVRITEEAALEIGRRS---  200 (324)
T ss_dssp             TTTCSCEEECCCCC-HH---HH-HHHHHHHH--------------------------HT-TTCCCCHHHHHHHHHHS---
T ss_pred             HhcccEEEecCCCC-HH---HH-HHHHHHHH--------------------------Hh-cCCCCCHHHHHHHHHHc---
Confidence            99998777665432 21   11 12222111                          11 12346777766665431   


Q ss_pred             hcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         163 RNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       163 r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                    +=.+|.+..+++.+...|.+...+.|+.+|+..++.
T Consensus       201 --------------~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~  236 (324)
T 1hqc_A          201 --------------RGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALA  236 (324)
T ss_dssp             --------------CSCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHH
T ss_pred             --------------cCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence                          114677777777777777777777788887776653

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.88  E-value=3.9e-09  Score=90.06  Aligned_cols=160  Identities=21%  Similarity=0.237  Sum_probs=103.9

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      .+|.+..|+||++|+||++.|+.+.+..|+++|++|+++  +.|.....+.++.||+|+|..-..     -.....+...
T Consensus       223 ~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~--~~g~~~~~~~~~rii~at~~~l~~-----~~~~g~fr~d  295 (387)
T 1ny5_A          223 KEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFY--RLGGRKEIEVNVRILAATNRNIKE-----LVKEGKFRED  295 (387)
T ss_dssp             BCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEEC--CBTCCSBEECCCEEEEEESSCHHH-----HHHTTSSCHH
T ss_pred             cCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEE--eCCCCceeeccEEEEEeCCCCHHH-----HHHcCCccHH
Confidence            368888999999999999999999999999999999865  577777889999999999984100     0111225566


Q ss_pred             CCCcccEEEE-ecCCCCc-cccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFI-IKDEHDE-TRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRY  159 (214)
Q Consensus        82 lldRFDL~~~-~~~~~~~-~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y  159 (214)
                      |+.|+..+-+ ++.-.+. +.-..++++.++........                        -.+.+++++.+.+..|-
T Consensus       296 l~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~------------------------~~~~~~~~a~~~l~~~~  351 (387)
T 1ny5_A          296 LYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAK------------------------EVEGFTKSAQELLLSYP  351 (387)
T ss_dssp             HHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTC------------------------CCCEECHHHHHHHHHSC
T ss_pred             HHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCC------------------------CCCCCCHHHHHHHHhCC
Confidence            6666653322 2221121 11224445544432221100                        02357888888876531


Q ss_pred             HHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         160 VLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       160 ~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                                      -+=.+|.|+.+++-+-..++   ...|+.+|+-..+
T Consensus       352 ----------------wpGNvreL~~~i~~~~~~~~---~~~i~~~~l~~~~  384 (387)
T 1ny5_A          352 ----------------WYGNVRELKNVIERAVLFSE---GKFIDRGELSCLV  384 (387)
T ss_dssp             ----------------CTTHHHHHHHHHHHHHHHCC---SSEECHHHHHHHC
T ss_pred             ----------------CCcHHHHHHHHHHHHHHhCC---CCcCcHHHCcHhh
Confidence                            12357889988887776664   4678888886543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.76  E-value=9.7e-09  Score=94.60  Aligned_cols=102  Identities=16%  Similarity=0.221  Sum_probs=70.2

Q ss_pred             eeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC--------CCCCCCc--c-c
Q psy7187           5 AMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF--------GRWDDTK--G-E   73 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~--------g~~~~~~--~-~   73 (214)
                      ++..+++||+|+||++++++++++.|+++|++|.++.. .|....+ .++.||+|+|+..        |+.....  . .
T Consensus       552 ~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~-~g~~~~~-~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~  629 (758)
T 1r6b_X          552 AVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN-NGRKADF-RNVVLVMTTNAGVRETERKSIGLIHQDNSTDAM  629 (758)
T ss_dssp             HHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEET-TTEEEEC-TTEEEEEEECSSCC-----------------CH
T ss_pred             HHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcC-CCCEEec-CCeEEEEecCcchhhhhhcccCccccchHHHHH
Confidence            34567899999999999999999999999999999874 4666665 6899999999942        2211100  0 1


Q ss_pred             c--cccCCCCCCCcccEEEEecCCCCccccHHHHHHHH
Q psy7187          74 Q--NIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIM  109 (214)
Q Consensus        74 ~--~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il  109 (214)
                      +  ...++++|++|||.++.+. +.+.+.-..|.++.+
T Consensus       630 ~~~~~~~~~~l~~R~~~~i~~~-~l~~~~~~~i~~~~l  666 (758)
T 1r6b_X          630 EEIKKIFTPEFRNRLDNIIWFD-HLSTDVIHQVVDKFI  666 (758)
T ss_dssp             HHHHHHSCHHHHTTCSEEEECC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHhhCCcceeeC-CCCHHHHHHHHHHHH
Confidence            1  1268899999999886554 444443334444433

>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=98.75  E-value=4.8e-08  Score=84.96  Aligned_cols=140  Identities=19%  Similarity=0.171  Sum_probs=91.5

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcc-cccccCCCCCCCcccEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKG-EQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~-~~~~~l~~~lldRFDL~~   90 (214)
                      ||++|||++.|+.+..++|+.+||+.             |..+.|+++ ||.-+.-..... .....+++.++|||-+ +
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~-------------~~~~~il~t-n~~~~~i~~~~~~~~~~~l~~~i~sR~~~-~  361 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESS-------------IAPIVIFAS-NRGNCVIRGTEDITSPHGIPLDLLDRVMI-I  361 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTST-------------TCCEEEEEE-CCSEEECBTTSSCEEETTCCHHHHTTEEE-E
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhcc-------------CCCEEEEec-CCccccccccccccccccCChhHHhhcce-e
Confidence            79999999999999999999999964             233333344 552000000000 1233588899999965 3


Q ss_pred             EecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCC
Q psy7187          91 IIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDG  170 (214)
Q Consensus        91 ~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~  170 (214)
                      . ..+.+.+   .+.+. +..+..                          . ....+++++..+|.++...         
T Consensus       362 ~-~~~~~~~---e~~~i-L~~~~~--------------------------~-~~~~~~~~~~~~i~~~a~~---------  400 (456)
T 2c9o_A          362 R-TMLYTPQ---EMKQI-IKIRAQ--------------------------T-EGINISEEALNHLGEIGTK---------  400 (456)
T ss_dssp             E-CCCCCHH---HHHHH-HHHHHH--------------------------H-HTCCBCHHHHHHHHHHHHH---------
T ss_pred             e-CCCCCHH---HHHHH-HHHHHH--------------------------H-hCCCCCHHHHHHHHHHccC---------
Confidence            3 3333322   22222 111110                          0 1224788888888765421         


Q ss_pred             CCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         171 EKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       171 ~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                             -++|....+++.|..+|.+++++.|+.+||.+|+.+|
T Consensus       401 -------g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~~  437 (456)
T 2c9o_A          401 -------TTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELF  437 (456)
T ss_dssp             -------SCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHHS
T ss_pred             -------CCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHHh
Confidence                   1689999999999999999999999999999999876

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=98.73  E-value=6.4e-09  Score=88.11  Aligned_cols=59  Identities=20%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             ceeeccCCceEeeccCCCCCHH--------------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecC
Q psy7187           4 GAMVLADGGVVCIDEFDKMRED--------------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANS   62 (214)
Q Consensus         4 G~l~la~~Gv~~iDE~~~~~~~--------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np   62 (214)
                      |.+..+++||+||||++++..+              .++.|++.||.+.+++.+.|.....+.++.+++++|+
T Consensus       131 ~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~  203 (376)
T 1um8_A          131 WNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDI  203 (376)
T ss_dssp             TCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTC
T ss_pred             chhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCe
Confidence            4556678999999999999988              9999999999999988888877766666666666665

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.70  E-value=1.3e-08  Score=83.29  Aligned_cols=170  Identities=18%  Similarity=0.229  Sum_probs=102.6

Q ss_pred             cceeecc-CCceEeeccCCCCCHHH------------HHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCC
Q psy7187           3 GGAMVLA-DGGVVCIDEFDKMREDD------------RVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDD   69 (214)
Q Consensus         3 ~G~l~la-~~Gv~~iDE~~~~~~~~------------~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~   69 (214)
                      +|.+..+ .+||+||||++++..+.            ++.|++.|+.+.+.. +.|  ..-+..+.+++++|+...    
T Consensus       108 ~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~-~~~--~~~~~~~~~i~~~~~~~~----  180 (310)
T 1ofh_A          108 GGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST-KHG--MVKTDHILFIASGAFQVA----  180 (310)
T ss_dssp             TTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEE-TTE--EEECTTCEEEEEECCSSS----
T ss_pred             hHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEec-ccc--cccCCcEEEEEcCCcccC----
Confidence            3445454 47999999999998765            889999999887765 233  233557889999876411    


Q ss_pred             CcccccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHh-ccCCCCC
Q psy7187          70 TKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRM-RCGPRLT  148 (214)
Q Consensus        70 ~~~~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~-~~~p~ls  148 (214)
                          ....++++|++||++.+.+... +.+.-.    .++..+          .     ...+++|...++. ...+.++
T Consensus       181 ----~~~~l~~~l~~R~~~~i~~~~~-~~~~~~----~il~~~----------~-----~~~~~~~~~~~~~~~~~~~~~  236 (310)
T 1ofh_A          181 ----RPSDLIPELQGRLPIRVELTAL-SAADFE----RILTEP----------H-----ASLTEQYKALMATEGVNIAFT  236 (310)
T ss_dssp             ----CGGGSCHHHHHTCCEEEECCCC-CHHHHH----HHHHSS----------T-----TCHHHHHHHHHHHTTCEEEEC
T ss_pred             ----CcccCCHHHHhhCCceEEcCCc-CHHHHH----HHHHhh----------H-----HHHHHHHHHHHHhcCCeeccC
Confidence                1124788999999976666543 322111    222210          0     0133344433332 1234689


Q ss_pred             HHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhcc-----CCCC-CCcHHHHHHHHh
Q psy7187         149 HEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKM-----QLEP-FAIDSHVTEALR  212 (214)
Q Consensus       149 ~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l-----~~r~-~V~~~Dv~~Ai~  212 (214)
                      +++.++|.+++...+....         .-++|.+..+++-+-..+.+     .+.. .|+.+||.+|+.
T Consensus       237 ~~a~~~l~~~~~~~~~~~~---------~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~  297 (310)
T 1ofh_A          237 TDAVKKIAEAAFRVNEKTE---------NIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALG  297 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHSC---------CCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTC
T ss_pred             HHHHHHHHHHhhhhccccc---------ccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHH
Confidence            9999999887643221110         22578888777765533222     2222 599999999874

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.66  E-value=2.5e-08  Score=84.49  Aligned_cols=145  Identities=19%  Similarity=0.280  Sum_probs=92.8

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+..|+||.+|+||+++|+.+.+..|+.+|++|+++  +-|.....+.++.+|+|+|..-..     ......+...|
T Consensus       215 ~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~--~~g~~~~~~~~~rii~at~~~l~~-----~v~~g~fr~dL  287 (368)
T 3dzd_A          215 KGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFT--RLGGNQKIEVDIRVISATNKNLEE-----EIKKGNFREDL  287 (368)
T ss_dssp             ECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEEC--CBTCCCBEECCCEEEEEESSCHHH-----HHHTTSSCHHH
T ss_pred             CChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcc--cCCCCcceeeeeEEEEecCCCHHH-----HHHcCCccHHH
Confidence            57788899999999999999999999999999999865  467677789999999999975100     01122355667


Q ss_pred             CCcccEEEE-ecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFI-IKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~~~-~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      +.|+..+-+ ++.-.+...| ..++.+.++........                        -.+.+++++.+.|..|- 
T Consensus       288 ~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~------------------------~~~~~~~~a~~~L~~~~-  342 (368)
T 3dzd_A          288 YYRLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKK------------------------NCFELSEETKEYLMKQE-  342 (368)
T ss_dssp             HHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTC------------------------CCCCBCHHHHHHHHTCC-
T ss_pred             HHHhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCC------------------------CCCCcCHHHHHHHHhCC-
Confidence            777654432 2222222122 34455554433221100                        12467888887775431 


Q ss_pred             HHhcCCCcCCCCccccccCHHHHHHHHHHHHHHh
Q psy7187         161 LMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMA  194 (214)
Q Consensus       161 ~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A  194 (214)
                                     -+=.+|.|+.+++-+-..+
T Consensus       343 ---------------wpGNvreL~n~i~~~~~~~  361 (368)
T 3dzd_A          343 ---------------WKGNVRELKNLIERAVILC  361 (368)
T ss_dssp             ---------------CTTHHHHHHHHHHHHHHTC
T ss_pred             ---------------CCcHHHHHHHHHHHHHHhC
Confidence                           1224688888777665554

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.58  E-value=3.2e-07  Score=77.01  Aligned_cols=138  Identities=14%  Similarity=0.171  Sum_probs=89.2

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC--CCCCCCcccccccCCCCCCCcccEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF--GRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~--g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      ||+||||++.++.+..+.|+..|++...             .+.++++.++..  +.-.   ......++++|++||.. 
T Consensus       191 ~vl~IDEi~~l~~~~~~~L~~~le~~~~-------------~~~ii~t~~~~~~i~~t~---~~~~~~l~~~l~sR~~~-  253 (368)
T 3uk6_A          191 GVLFIDEVHMLDIESFSFLNRALESDMA-------------PVLIMATNRGITRIRGTS---YQSPHGIPIDLLDRLLI-  253 (368)
T ss_dssp             CEEEEESGGGSBHHHHHHHHHHTTCTTC-------------CEEEEEESCSEEECBTSS---CEEETTCCHHHHTTEEE-
T ss_pred             ceEEEhhccccChHHHHHHHHHhhCcCC-------------CeeeeecccceeeeeccC---CCCcccCCHHHHhhccE-
Confidence            6999999999999999999999987432             122333322210  0000   00122488899999976 


Q ss_pred             EEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcC
Q psy7187          90 FIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED  169 (214)
Q Consensus        90 ~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~  169 (214)
                      +.+. +++.+....    ++...                          ++. ....+++++.++|.++...        
T Consensus       254 i~~~-~~~~~e~~~----il~~~--------------------------~~~-~~~~~~~~~l~~l~~~~~~--------  293 (368)
T 3uk6_A          254 VSTT-PYSEKDTKQ----ILRIR--------------------------CEE-EDVEMSEDAYTVLTRIGLE--------  293 (368)
T ss_dssp             EEEC-CCCHHHHHH----HHHHH--------------------------HHH-TTCCBCHHHHHHHHHHHHH--------
T ss_pred             EEec-CCCHHHHHH----HHHHH--------------------------HHH-cCCCCCHHHHHHHHHHhcC--------
Confidence            4443 333222111    11111                          111 1335888888888765421        


Q ss_pred             CCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhcC
Q psy7187         170 GEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRLF  214 (214)
Q Consensus       170 ~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~lf  214 (214)
                              -++|.+..+++-|...|...+++.|+.+||.+|+..|
T Consensus       294 --------G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~~  330 (368)
T 3uk6_A          294 --------TSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLF  330 (368)
T ss_dssp             --------SCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHS
T ss_pred             --------CCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHh
Confidence                    2689999999999999999999999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.47  E-value=1.2e-07  Score=77.77  Aligned_cols=102  Identities=14%  Similarity=0.185  Sum_probs=67.6

Q ss_pred             eeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC-------CCCCCCCcc-cc---
Q psy7187           6 MVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV-------FGRWDDTKG-EQ---   74 (214)
Q Consensus         6 l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~-------~g~~~~~~~-~~---   74 (214)
                      +..+.+||++|||+++++++.++.|++.|+++.++.. .|....++ ++.+|+|+|+.       .+..+.... ..   
T Consensus       115 ~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~-~~~~~~~~-~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~  192 (311)
T 4fcw_A          115 VRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDS-HGRTVDFR-NTVIIMTSNLGSPLILEGLQKGWPYERIRDEVF  192 (311)
T ss_dssp             HHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECT-TSCEEECT-TEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTH
T ss_pred             HHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcC-CCCEEECC-CcEEEEecccCHHHHHhhhcccccHHHHHHHHH
Confidence            3455779999999999999999999999999998842 23333332 56699999993       111111111 11   


Q ss_pred             ---cccCCCCCCCcccEEEEecCCCCccccHHHHHHHHH
Q psy7187          75 ---NIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMK  110 (214)
Q Consensus        75 ---~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~  110 (214)
                         ...++++|++|||.++.+.. ++.+.-..|..+.+.
T Consensus       193 ~~~~~~~~~~l~~R~~~~~~~~p-~~~~~~~~i~~~~l~  230 (311)
T 4fcw_A          193 KVLQQHFRPEFLNRLDEIVVFRP-LTKEQIRQIVEIQMS  230 (311)
T ss_dssp             HHHHHHSCHHHHTTCSEEEECCC-CCHHHHHHHHHHHTH
T ss_pred             HHHHHhCCHHHHhcCCeEEEeCC-CCHHHHHHHHHHHHH
Confidence               33688999999998777654 444444444444443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.45  E-value=4.6e-07  Score=78.63  Aligned_cols=135  Identities=13%  Similarity=0.172  Sum_probs=83.3

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEee--cCCCCCCCCCcccccccCCCCCCCc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA--NSVFGRWDDTKGEQNIDFMPTILSR   85 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~--Np~~g~~~~~~~~~~~~l~~~lldR   85 (214)
                      .+.++|+||||++.|+.+.++.|+..||+++               +.+|+++  ||.            ..+.++|++|
T Consensus       104 ~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~---------------v~lI~att~n~~------------~~l~~aL~sR  156 (447)
T 3pvs_A          104 AGRRTILFVDEVHRFNKSQQDAFLPHIEDGT---------------ITFIGATTENPS------------FELNSALLSR  156 (447)
T ss_dssp             TTCCEEEEEETTTCC------CCHHHHHTTS---------------CEEEEEESSCGG------------GSSCHHHHTT
T ss_pred             cCCCcEEEEeChhhhCHHHHHHHHHHHhcCc---------------eEEEecCCCCcc------------cccCHHHhCc
Confidence            3578999999999999999999999999865               4455555  442            2378999999


Q ss_pred             ccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcC
Q psy7187          86 FDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNG  165 (214)
Q Consensus        86 FDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~  165 (214)
                      |. ++.+ ...+.+.-..+..+.+.    ....    .   +           ..  ....+++++.+.|.+++      
T Consensus       157 ~~-v~~l-~~l~~edi~~il~~~l~----~~~~----~---~-----------~~--~~~~i~~~al~~L~~~~------  204 (447)
T 3pvs_A          157 AR-VYLL-KSLSTEDIEQVLTQAME----DKTR----G---Y-----------GG--QDIVLPDETRRAIAELV------  204 (447)
T ss_dssp             EE-EEEC-CCCCHHHHHHHHHHHHH----CTTT----S---S-----------TT--SSEECCHHHHHHHHHHH------
T ss_pred             ee-EEee-CCcCHHHHHHHHHHHHH----HHhh----h---h-----------cc--ccCcCCHHHHHHHHHHC------
Confidence            96 3333 33332222222222221    1000    0   0           00  12357889888887763      


Q ss_pred             CCcCCCCccccccCHHHHHHHHHHHHHHhccC--CCCCCcHHHHHHHHh
Q psy7187         166 SKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ--LEPFAIDSHVTEALR  212 (214)
Q Consensus       166 ~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~--~r~~V~~~Dv~~Ai~  212 (214)
                                 +=.+|.+..++..+-..|...  +...||.+|+.+++.
T Consensus       205 -----------~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~~l~  242 (447)
T 3pvs_A          205 -----------NGDARRALNTLEMMADMAEVDDSGKRVLKPELLTEIAG  242 (447)
T ss_dssp             -----------CSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHHHHT
T ss_pred             -----------CCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHHHHh
Confidence                       115788999999888888765  667899999998864

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=98.41  E-value=1.1e-07  Score=84.57  Aligned_cols=151  Identities=19%  Similarity=0.212  Sum_probs=84.7

Q ss_pred             CCceEeeccCCCCCHH----HHHHHHHhhhcCeE-EEEecceEEEEe-CceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187          10 DGGVVCIDEFDKMRED----DRVAIHEAMEQQTI-SIAKAGITTTLN-SRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~----~~~~L~e~me~~~i-~i~~~g~~~~lp-a~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      ++||+|+||++++..+    .++.|++.|+.+.. .+...+....++ .++.+|+|+|+...            ++++|+
T Consensus       175 ~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~------------l~~aL~  242 (543)
T 3m6a_A          175 LNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLAT------------IPGPLR  242 (543)
T ss_dssp             SSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTT------------SCHHHH
T ss_pred             cCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCcccc------------CCHHHH
Confidence            7889999999999987    45889999986443 222233333333 57899999999643            889999


Q ss_pred             CcccEEEEecCCCCccccHHHHHHHH-HHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHH
Q psy7187          84 SRFDMIFIIKDEHDETRDITLAKHIM-KVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        84 dRFDL~~~~~~~~~~~~d~~ia~~il-~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~  162 (214)
                      +||+. +.+ +.++.+....|..+.+ .........                      ..-...+++++...|...|.  
T Consensus       243 ~R~~v-i~~-~~~~~~e~~~Il~~~l~~~~~~~~~~----------------------~~~~i~i~~~~l~~l~~~~~--  296 (543)
T 3m6a_A          243 DRMEI-INI-AGYTEIEKLEIVKDHLLPKQIKEHGL----------------------KKSNLQLRDQAILDIIRYYT--  296 (543)
T ss_dssp             HHEEE-EEC-CCCCHHHHHHHHHHTHHHHHHHHTTC----------------------CGGGCEECHHHHHHHHHHHC--
T ss_pred             hhcce-eee-CCCCHHHHHHHHHHHHHHHHHHHcCC----------------------CcccccCCHHHHHHHHHhCC--
Confidence            99974 333 4444444444433322 111110000                      00022468888888777662  


Q ss_pred             hcCCCcCCCCccccccCHHHHHHHHHHHHHHhcc------CCCCCCcHHHHHHHH
Q psy7187         163 RNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKM------QLEPFAIDSHVTEAL  211 (214)
Q Consensus       163 r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l------~~r~~V~~~Dv~~Ai  211 (214)
                                   .+-.+|.++..+.-.-..|..      .....|+.+|+.+++
T Consensus       297 -------------~~~~vR~L~~~i~~~~~~aa~~~~~~~~~~~~It~~~l~~~L  338 (543)
T 3m6a_A          297 -------------REAGVRSLERQLAAICRKAAKAIVAEERKRITVTEKNLQDFI  338 (543)
T ss_dssp             -------------CCSSSHHHHHHHHHHHHHHHHHHHTTCCSCCEECTTTTHHHH
T ss_pred             -------------hhhchhHHHHHHHHHHHHHHHHHHhcCCcceecCHHHHHHHh
Confidence                         122456665544332222221      134478899988875

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=98.38  E-value=2.8e-08  Score=83.84  Aligned_cols=59  Identities=17%  Similarity=0.217  Sum_probs=34.4

Q ss_pred             ceeeccCCceEeeccCCCCCHH--------------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecC
Q psy7187           4 GAMVLADGGVVCIDEFDKMRED--------------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANS   62 (214)
Q Consensus         4 G~l~la~~Gv~~iDE~~~~~~~--------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np   62 (214)
                      |.+..+++||+||||+++++.+              +++.|++.||...+.+...|....-+.++.+++|+|.
T Consensus       110 ~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~~i~tsn~  182 (363)
T 3hws_A          110 YDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKI  182 (363)
T ss_dssp             TCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CCCCCTTSS
T ss_pred             hhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceEEEECCCc
Confidence            4456678999999999999877              8999999999555556444443333334555555555

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.27  E-value=8.1e-06  Score=67.96  Aligned_cols=143  Identities=18%  Similarity=0.200  Sum_probs=91.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEE--Eec---ceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISI--AKA---GITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i--~~~---g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      ..++|+||||++.+.+...+.|+..|+.+.+.+  .+.   .........+.++++.|+. +           .||+++.
T Consensus       101 ~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~-~-----------~Ls~~l~  168 (334)
T 1in4_A          101 ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRS-G-----------LLSSPLR  168 (334)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCG-G-----------GSCHHHH
T ss_pred             cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCc-c-----------cCCHHHH
Confidence            467899999999999988999999998764321  111   0111122357788777664 2           3899999


Q ss_pred             CcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHh
Q psy7187          84 SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMR  163 (214)
Q Consensus        84 dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r  163 (214)
                      +||.+.+.+ +..+.+   .+.+. +...                          ++. ....+++++..+|.+.     
T Consensus       169 sR~~l~~~L-d~~~~~---~l~~i-L~~~--------------------------~~~-~~~~~~~~~~~~ia~~-----  211 (334)
T 1in4_A          169 SRFGIILEL-DFYTVK---ELKEI-IKRA--------------------------ASL-MDVEIEDAAAEMIAKR-----  211 (334)
T ss_dssp             TTCSEEEEC-CCCCHH---HHHHH-HHHH--------------------------HHH-TTCCBCHHHHHHHHHT-----
T ss_pred             HhcCceeeC-CCCCHH---HHHHH-HHHH--------------------------HHH-cCCCcCHHHHHHHHHh-----
Confidence            999876544 333322   22111 1111                          111 1234677776666431     


Q ss_pred             cCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         164 NGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       164 ~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .            .=++|....+++.+...|.+.++..|+.+++.+|+.
T Consensus       212 ~------------~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~  248 (334)
T 1in4_A          212 S------------RGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTME  248 (334)
T ss_dssp             S------------TTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             c------------CCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            1            116799999999999999998888999999999875

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.27  E-value=1.3e-05  Score=82.07  Aligned_cols=141  Identities=16%  Similarity=0.198  Sum_probs=95.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHH-------HHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAI-------HEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L-------~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      ..|..+|+||||++++++++.|       +++|.++..++.-.|....++..|.|++|+||.  +.      ...+||.+
T Consensus       696 ~~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPg--y~------g~~eLP~~  767 (2695)
T 4akg_A          696 QIGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPG--YN------GRSELPEN  767 (2695)
T ss_dssp             HHTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCC--SS------SSCCCCHH
T ss_pred             hcCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCC--cc------CcccccHH
Confidence            3478999999999999999988       889988887777789999999999999999994  21      23359999


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVL  161 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~  161 (214)
                      |.+|| ..+.+ +.+|.+   .+++-++..                            ..   +...+.....+...|..
T Consensus       768 Lk~~F-r~v~m-~~Pd~~---~i~ei~l~s----------------------------~G---f~~a~~la~kiv~~~~l  811 (2695)
T 4akg_A          768 LKKSF-REFSM-KSPQSG---TIAEMILQI----------------------------MG---FEDSKSLASKIVHFLEL  811 (2695)
T ss_dssp             HHTTE-EEEEC-CCCCHH---HHHHHHHHH----------------------------HH---CSSHHHHHHHHHHHHHH
T ss_pred             HHhhe-EEEEe-eCCCHH---HHHHHHHHh----------------------------cC---CCchHHHHHHHHHHHHH
Confidence            99999 44444 334422   223222221                            11   11233445566666665


Q ss_pred             HhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccC
Q psy7187         162 MRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ  197 (214)
Q Consensus       162 ~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~  197 (214)
                      .|..-+.    ......+.|++.++++.|...-+-.
T Consensus       812 ~~e~ls~----q~hydfglRalksvL~~ag~lkr~~  843 (2695)
T 4akg_A          812 LSSKCSS----MNHYHFGLRTLKGVLRNCSPLISEF  843 (2695)
T ss_dssp             HHHHSCC----CTTCCCSHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHhCc----CCcccccHHHHHHHHHHHHHhhccC
Confidence            5542221    1124578999999999887665543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.27  E-value=1.1e-06  Score=71.82  Aligned_cols=142  Identities=19%  Similarity=0.127  Sum_probs=85.4

Q ss_pred             eeeccCCceEeeccCCCC---------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccc
Q psy7187           5 AMVLADGGVVCIDEFDKM---------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQN   75 (214)
Q Consensus         5 ~l~la~~Gv~~iDE~~~~---------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~   75 (214)
                      .+..+.+||+||||++.+         +...+..|++.|+++             +.++.+|+++|+..-       ...
T Consensus       125 ~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~-------------~~~~~~i~~~~~~~~-------~~~  184 (309)
T 3syl_A          125 VLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENN-------------RDDLVVILAGYADRM-------ENF  184 (309)
T ss_dssp             HHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHC-------------TTTCEEEEEECHHHH-------HHH
T ss_pred             HHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcC-------------CCCEEEEEeCChHHH-------HHH
Confidence            344578899999999966         888999999999975             356888999987410       011


Q ss_pred             ccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHH
Q psy7187          76 IDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKL  155 (214)
Q Consensus        76 ~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i  155 (214)
                      ..+.++|.+||+..+.+... +.+.-..+..+.+..                               ....+++++.+.+
T Consensus       185 ~~~~~~l~~R~~~~i~~~~~-~~~~~~~il~~~l~~-------------------------------~~~~~~~~~~~~l  232 (309)
T 3syl_A          185 FQSNPGFRSRIAHHIEFPDY-SDEELFEIAGHMLDD-------------------------------QNYQMTPEAETAL  232 (309)
T ss_dssp             HHHSTTHHHHEEEEEEECCC-CHHHHHHHHHHHHHH-------------------------------TTCEECHHHHHHH
T ss_pred             HhhCHHHHHhCCeEEEcCCc-CHHHHHHHHHHHHHH-------------------------------cCCCCCHHHHHHH
Confidence            23569999999987776544 332222222222211                               1224677888888


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccC----CCCCCcHHHH
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ----LEPFAIDSHV  207 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~----~r~~V~~~Dv  207 (214)
                      .+++...+...         .+-+.|.+..+++-+...+..+    ....++.+|+
T Consensus       233 ~~~~~~~~~~~---------~~gn~r~l~~~l~~a~~~~~~r~~~~~~~~~~~~~l  279 (309)
T 3syl_A          233 RAYIGLRRNQP---------HFANARSIRNALDRARLRQANRLFTASSGPLDARAL  279 (309)
T ss_dssp             HHHHHHHTTSS---------SCCHHHHHHHHHHHHHHHHHHHHHHC---CEEHHHH
T ss_pred             HHHHHHhccCC---------CCCcHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHH
Confidence            77665443221         1224777777776665433222    2344555544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.25  E-value=1.9e-07  Score=85.98  Aligned_cols=101  Identities=16%  Similarity=0.174  Sum_probs=65.1

Q ss_pred             eeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCc
Q psy7187           6 MVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSR   85 (214)
Q Consensus         6 l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldR   85 (214)
                      +-.+.+||+|+||++++++++++.|+++|++|.++..  +.....+.++.||+|+|......+.....-...+++.|++|
T Consensus       575 ~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~--~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~R  652 (758)
T 3pxi_A          575 VRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDS--KGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFINR  652 (758)
T ss_dssp             HHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-------CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTT
T ss_pred             HHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcC--CCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhh
Confidence            3456789999999999999999999999999998874  33345567899999999742210000001112378999999


Q ss_pred             ccEEEEecCCCCccccHHHHHHHH
Q psy7187          86 FDMIFIIKDEHDETRDITLAKHIM  109 (214)
Q Consensus        86 FDL~~~~~~~~~~~~d~~ia~~il  109 (214)
                      ||.++.+.. .+.+.-..|..+.+
T Consensus       653 l~~~i~~~~-l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          653 IDEIIVFHS-LEKKHLTEIVSLMS  675 (758)
T ss_dssp             SSEEEECC---CHHHHHHHHHHHH
T ss_pred             CCeEEecCC-CCHHHHHHHHHHHH
Confidence            998666544 34333334444433

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.14  E-value=8.3e-07  Score=82.84  Aligned_cols=100  Identities=14%  Similarity=0.187  Sum_probs=65.8

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCC-C----C--Ccc-c------
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRW-D----D--TKG-E------   73 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~-~----~--~~~-~------   73 (214)
                      .+.+||+||||++++++++++.|+++|++|.++-. .|....+ .++.||+|+|.....+ +    .  ... .      
T Consensus       658 ~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~-~g~~vd~-~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~  735 (854)
T 1qvr_A          658 RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDS-HGRTVDF-RNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKV  735 (854)
T ss_dssp             HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCS-SSCCEEC-TTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             hCCCeEEEEecccccCHHHHHHHHHHhccCceECC-CCCEecc-CCeEEEEecCcChHHHhhhcccccchHHHHHHHHHH
Confidence            35689999999999999999999999999998732 3444443 3577999999831100 0    0  000 0      


Q ss_pred             ccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHH
Q psy7187          74 QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMK  110 (214)
Q Consensus        74 ~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~  110 (214)
                      ....+.+.|++|||.++.... .+.+.-..|.++.+.
T Consensus       736 ~~~~f~~~l~~Rl~~~i~~~p-l~~edi~~i~~~~l~  771 (854)
T 1qvr_A          736 LQQHFRPEFLNRLDEIVVFRP-LTKEQIRQIVEIQLS  771 (854)
T ss_dssp             HHTTSCHHHHHTCSBCCBCCC-CCHHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHhcCeEEeCCC-CCHHHHHHHHHHHHH
Confidence            133578899999987766543 444444445444444

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.11  E-value=1.1e-05  Score=82.53  Aligned_cols=90  Identities=17%  Similarity=0.097  Sum_probs=66.7

Q ss_pred             CceEeeccCCCCCHH------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC--CCCCCCCcccccccCCCCC
Q psy7187          11 GGVVCIDEFDKMRED------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV--FGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~--~g~~~~~~~~~~~~l~~~l   82 (214)
                      +.|+||||+|.-..+      .++.|++.||.|.+...+.+...++ .++++||||||+  +|++         .|++.+
T Consensus      1337 ~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~-~~i~lIaA~Npp~~gGR~---------~l~~rl 1406 (2695)
T 4akg_A         1337 NLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTI-ERIHIVGACNPPTDPGRI---------PMSERF 1406 (2695)
T ss_dssp             CEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEE-ESEEEEEEECCTTSTTCC---------CCCHHH
T ss_pred             eEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEe-cCEEEEEecCCCccCCCc---------cCChhh
Confidence            459999998774433      7899999999998888777766676 789999999998  4654         389999


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVH  112 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~  112 (214)
                      +.||- ++. .+.++.+.-..|-..++..+
T Consensus      1407 lRrf~-vi~-i~~P~~~~l~~I~~~il~~~ 1434 (2695)
T 4akg_A         1407 TRHAA-ILY-LGYPSGKSLSQIYEIYYKAI 1434 (2695)
T ss_dssp             HTTEE-EEE-CCCCTTTHHHHHHHHHHHHH
T ss_pred             hheee-EEE-eCCCCHHHHHHHHHHHHHHH
Confidence            99993 333 34555555555555555544

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.06  E-value=2.5e-05  Score=66.23  Aligned_cols=63  Identities=16%  Similarity=0.276  Sum_probs=43.3

Q ss_pred             CCceEeeccCCCC-----------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKM-----------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~-----------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..||+||||++.+           ....+..|+..|+.         .....+.++.||||+|+..            .+
T Consensus       207 ~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~~~v~vI~atn~~~------------~l  265 (389)
T 3vfd_A          207 QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDG---------VQSAGDDRVLVMGATNRPQ------------EL  265 (389)
T ss_dssp             SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHH---------HC-----CEEEEEEESCGG------------GC
T ss_pred             CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhc---------ccccCCCCEEEEEecCCch------------hc
Confidence            4489999999877           44566677777762         2233356799999999853            27


Q ss_pred             CCCCCCcccEEEEec
Q psy7187          79 MPTILSRFDMIFIIK   93 (214)
Q Consensus        79 ~~~lldRFDL~~~~~   93 (214)
                      .+.+++||+..+.+.
T Consensus       266 ~~~l~~R~~~~i~i~  280 (389)
T 3vfd_A          266 DEAVLRRFIKRVYVS  280 (389)
T ss_dssp             CHHHHTTCCEEEECC
T ss_pred             CHHHHcCcceEEEcC
Confidence            789999999766553

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.05  E-value=4.3e-06  Score=67.60  Aligned_cols=36  Identities=19%  Similarity=0.132  Sum_probs=33.1

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+.|.+..+++.|...|..++++.|+.+|+.+|+.
T Consensus       221 g~~~~~i~~l~~~a~~~a~~~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          221 GCVGAELKAICTEAGMNAIRELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccCcCCHHHHHHHHH
Confidence            468899999999999999999999999999999975

>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=98.04  E-value=3.9e-06  Score=72.53  Aligned_cols=162  Identities=19%  Similarity=0.249  Sum_probs=94.3

Q ss_pred             ceeecc-CCceEeeccCCCCCHH------------HHHHHHHhhhcCeEEEEecceEEEEeC-ceEEEEee-----cCCC
Q psy7187           4 GAMVLA-DGGVVCIDEFDKMRED------------DRVAIHEAMEQQTISIAKAGITTTLNS-RCSVLAAA-----NSVF   64 (214)
Q Consensus         4 G~l~la-~~Gv~~iDE~~~~~~~------------~~~~L~e~me~~~i~i~~~g~~~~lpa-~~~viaa~-----Np~~   64 (214)
                      +++..| .+||+++||++++..+            ++++|+++||-.+++. +.+   .+.. +..+|+|.     ||. 
T Consensus       243 ~ai~~ae~~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~-~~~---~~d~~~ilfI~~gaf~~~~~~-  317 (444)
T 1g41_A          243 KAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST-KHG---MVKTDHILFIASGAFQVARPS-  317 (444)
T ss_dssp             HHHHHHHHHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEE-TTE---EEECTTCEEEEEECCSSCCGG-
T ss_pred             HHHHHhccCCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhccccccc-ccc---eecCCcEEEEeccccccCChh-
Confidence            345566 7899999999998643            7789999999877765 332   2232 35667775     442 


Q ss_pred             CCCCCCcccccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhH-hcc
Q psy7187          65 GRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCR-MRC  143 (214)
Q Consensus        65 g~~~~~~~~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar-~~~  143 (214)
                                  .+-++|++||++++.+.+... +.-    .+|+..           .    ....+++|..... ..+
T Consensus       318 ------------dlipel~~R~~i~i~l~~lt~-~e~----~~Il~~-----------~----~~~l~~q~~~~~~~~~~  365 (444)
T 1g41_A          318 ------------DLIPELQGRLPIRVELTALSA-ADF----ERILTE-----------P----HASLTEQYKALMATEGV  365 (444)
T ss_dssp             ------------GSCHHHHTTCCEEEECCCCCH-HHH----HHHHHS-----------S----TTCHHHHHHHHHHTTTC
T ss_pred             ------------hcchHHhcccceeeeCCCCCH-HHH----HHHHHH-----------H----HHhHHHHHHHHhcccCc
Confidence                        144789999999888755432 111    122220           0    1124455543322 222


Q ss_pred             CCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHH-----HHHHHhccCCC-CCCcHHHHHHHH
Q psy7187         144 GPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVR-----IAESMAKMQLE-PFAIDSHVTEAL  211 (214)
Q Consensus       144 ~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lir-----lA~a~A~l~~r-~~V~~~Dv~~Ai  211 (214)
                      .-.++++|...|.+.+.......         -....|.+.+++.     ++.-....... -.|+.++|.+.+
T Consensus       366 ~l~~~~~al~~i~~~a~~~~~~t---------~~~GaR~L~~~ie~~~~~~~~~~~~~~~~~~~i~~~~v~~~l  430 (444)
T 1g41_A          366 NIAFTTDAVKKIAEAAFRVNEKT---------ENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADAL  430 (444)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHS---------CCCGGGHHHHHHHHHHHHHHHHGGGCTTCEEEECHHHHHHHH
T ss_pred             eEEECHHHHHHHHHHHHHhccCC---------ccCCchHHHHHHHHHHHHHHhhccccCCCeEEEeHHHHHHhc
Confidence            34689999999988765421111         1345777766554     33333322221 257888887654

>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=97.98  E-value=9.2e-05  Score=56.60  Aligned_cols=124  Identities=19%  Similarity=0.238  Sum_probs=78.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +.++|++|||++.++.+.++.|+..|++.             +..+.+|+++|...            .+.+++.+||. 
T Consensus       101 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~~------------~~~~~l~~r~~-  154 (226)
T 2chg_A          101 APFKIIFLDEADALTADAQAALRRTMEMY-------------SKSCRFILSCNYVS------------RIIEPIQSRCA-  154 (226)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHT-------------TTTEEEEEEESCGG------------GSCHHHHTTSE-
T ss_pred             cCceEEEEeChhhcCHHHHHHHHHHHHhc-------------CCCCeEEEEeCChh------------hcCHHHHHhCc-
Confidence            56789999999999999999999999863             33567788887642            26678889987 


Q ss_pred             EEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCc
Q psy7187          89 IFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE  168 (214)
Q Consensus        89 ~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~  168 (214)
                      .+.+. +.+.+   .+. .++..                          +++. ....+++++.+.+.+.+         
T Consensus       155 ~i~~~-~~~~~---~~~-~~l~~--------------------------~~~~-~~~~~~~~~~~~l~~~~---------  193 (226)
T 2chg_A          155 VFRFK-PVPKE---AMK-KRLLE--------------------------ICEK-EGVKITEDGLEALIYIS---------  193 (226)
T ss_dssp             EEECC-CCCHH---HHH-HHHHH--------------------------HHHH-HTCCBCHHHHHHHHHHH---------
T ss_pred             eeecC-CCCHH---HHH-HHHHH--------------------------HHHH-cCCCCCHHHHHHHHHHc---------
Confidence            44332 22211   111 11111                          1111 12247777777776432         


Q ss_pred             CCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         169 DGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       169 ~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                              +=.+|.+..+++-+...+     +.|+.+||.+|+.
T Consensus       194 --------~g~~r~l~~~l~~~~~~~-----~~I~~~~v~~~~~  224 (226)
T 2chg_A          194 --------GGDFRKAINALQGAAAIG-----EVVDADTIYQITA  224 (226)
T ss_dssp             --------TTCHHHHHHHHHHHHHTC-----SCBCHHHHHHHHH
T ss_pred             --------CCCHHHHHHHHHHHHhcC-----ceecHHHHHHHhc
Confidence                    114666666655444433     7999999999875

>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=97.87  E-value=6.4e-05  Score=59.67  Aligned_cols=36  Identities=11%  Similarity=-0.042  Sum_probs=24.5

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+.|.+..+++-|...|..+++..|+.+|+..|+.
T Consensus       212 g~~~~~l~~l~~~a~~~a~~~~~~~i~~~d~~~a~~  247 (262)
T 2qz4_A          212 GFSGADIANICNEAALHAAREGHTSVHTLNFEYAVE  247 (262)
T ss_dssp             TCCHHHHHHHHHHHHTC--------CCBCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            467889999999999999888899999999999875

>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=97.80  E-value=9.8e-05  Score=61.96  Aligned_cols=65  Identities=20%  Similarity=0.195  Sum_probs=43.9

Q ss_pred             cCCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187           9 ADGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      ...+|+||||++.+..           ..+..|+..|+..         ....+.++.||||+|+..            .
T Consensus       175 ~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~---------~~~~~~~v~vI~atn~~~------------~  233 (357)
T 3d8b_A          175 QQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGA---------TTSSEDRILVVGATNRPQ------------E  233 (357)
T ss_dssp             TCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC-------------CCCCEEEEEEESCGG------------G
T ss_pred             cCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcc---------cccCCCCEEEEEecCChh------------h
Confidence            3568999999977632           3455677777632         222355789999999852            2


Q ss_pred             CCCCCCCcccEEEEecC
Q psy7187          78 FMPTILSRFDMIFIIKD   94 (214)
Q Consensus        78 l~~~lldRFDL~~~~~~   94 (214)
                      +.+++++||+..+.+..
T Consensus       234 l~~~l~~Rf~~~i~i~~  250 (357)
T 3d8b_A          234 IDEAARRRLVKRLYIPL  250 (357)
T ss_dssp             BCHHHHTTCCEEEECCC
T ss_pred             CCHHHHhhCceEEEeCC
Confidence            77899999997766543

>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=97.73  E-value=0.00025  Score=58.61  Aligned_cols=54  Identities=20%  Similarity=0.262  Sum_probs=41.1

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ++.+|++|||++.++++.++.|++.|++..             ..+.++.++|...            .+.+++.+||.
T Consensus       132 ~~~~vliiDE~~~l~~~~~~~Ll~~le~~~-------------~~~~~il~~~~~~------------~l~~~l~sR~~  185 (353)
T 1sxj_D          132 PPYKIIILDEADSMTADAQSALRRTMETYS-------------GVTRFCLICNYVT------------RIIDPLASQCS  185 (353)
T ss_dssp             CSCEEEEETTGGGSCHHHHHHHHHHHHHTT-------------TTEEEEEEESCGG------------GSCHHHHHHSE
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHhcC-------------CCceEEEEeCchh------------hCcchhhccCc
Confidence            466799999999999999999999999742             2344555666532            26788889986

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.71  E-value=1.1e-05  Score=58.76  Aligned_cols=49  Identities=16%  Similarity=0.283  Sum_probs=42.9

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      .|.+..|++|++||||++.++.+.+..|++.|+++.            +.++.+|+|+|..
T Consensus        68 ~~~~~~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~------------~~~~~iI~~tn~~  116 (143)
T 3co5_A           68 MELLQKAEGGVLYVGDIAQYSRNIQTGITFIIGKAE------------RCRVRVIASCSYA  116 (143)
T ss_dssp             HHHHHHTTTSEEEEEECTTCCHHHHHHHHHHHHHHT------------TTTCEEEEEEEEC
T ss_pred             hhHHHhCCCCeEEEeChHHCCHHHHHHHHHHHHhCC------------CCCEEEEEecCCC
Confidence            466778899999999999999999999999999763            5678899999975

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.67  E-value=0.0004  Score=72.14  Aligned_cols=95  Identities=16%  Similarity=0.156  Sum_probs=66.7

Q ss_pred             ceeeccC--C--ceEeeccCCCCCHH------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC--CCCCCCc
Q psy7187           4 GAMVLAD--G--GVVCIDEFDKMRED------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF--GRWDDTK   71 (214)
Q Consensus         4 G~l~la~--~--Gv~~iDE~~~~~~~------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~--g~~~~~~   71 (214)
                      |.+..+-  |  .|+||||+|.-..+      .++.|++.|++|.+...+.+....+ .+++++|||||..  |+.    
T Consensus      1364 G~~~~p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i-~d~~~vaamnPp~~gGr~---- 1438 (3245)
T 3vkg_A         1364 ETVLRPTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKL-DKIQFVGACNPPTDAGRV---- 1438 (3245)
T ss_dssp             CEEEEESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEE-SSEEEEEEECCTTSTTCC----
T ss_pred             CcccCCCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEe-cCeEEEEEcCCCCCCCCc----
Confidence            6655553  2  49999999986654      8899999999998877555555555 6899999999973  442    


Q ss_pred             ccccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHH
Q psy7187          72 GEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMK  110 (214)
Q Consensus        72 ~~~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~  110 (214)
                           .+++.++.||-+ +.+ +.++.+.-..|-..++.
T Consensus      1439 -----~l~~Rf~r~F~v-i~i-~~ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1439 -----QLTHRFLRHAPI-LLV-DFPSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             -----CCCHHHHTTCCE-EEC-CCCCHHHHHHHHHHHHH
T ss_pred             -----cCCHHHHhhceE-EEe-CCCCHHHHHHHHHHHHH
Confidence                 499999999965 444 34444444444444443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.65  E-value=0.00036  Score=72.46  Aligned_cols=139  Identities=13%  Similarity=0.227  Sum_probs=86.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhh---------cCeEEEEec-ceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAME---------QQTISIAKA-GITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me---------~~~i~i~~~-g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..|+.+|+||||+++.++++.+.+.+.         ..++.+  . |....++..|.+++||||.  +      .....|
T Consensus       655 ~~GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~--~~G~~i~l~~~~~vfiTmNpg--Y------~gr~eL  724 (3245)
T 3vkg_A          655 QCGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVEL--LGGKNISLHQDMGIFVTMNPG--Y------AGRSNL  724 (3245)
T ss_dssp             HHTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECC--C---CEECCTTCEEEECBCCC--G------GGCCCS
T ss_pred             hcCcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEe--cCCCEEeecCCeEEEEEeCCC--c------cCcccC
Confidence            358889999999999999998877665         345554  4 7788999999999999994  3      122369


Q ss_pred             CCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHH
Q psy7187          79 MPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNR  158 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~  158 (214)
                      |..|.++| ..+.|. .||..   .|++-++.                            +...   .-.+.....+...
T Consensus       725 P~nLk~lF-r~v~m~-~Pd~~---~i~ei~L~----------------------------s~Gf---~~a~~La~k~~~~  768 (3245)
T 3vkg_A          725 PDNLKKLF-RSMAMI-KPDRE---MIAQVMLY----------------------------SQGF---KTAEVLAGKIVPL  768 (3245)
T ss_dssp             CHHHHTTE-EEEECC-SCCHH---HHHHHHHH----------------------------TTTC---SCHHHHHHHHHHH
T ss_pred             hHHHHhhc-EEEEEe-CCCHH---HHHHHHHH----------------------------Hccc---chHHHHHHHHHHH
Confidence            99999999 444443 33322   22222222                            1110   0112344555566


Q ss_pred             HHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccC
Q psy7187         159 YVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQ  197 (214)
Q Consensus       159 y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~  197 (214)
                      |...+..-+.    ...+..+.|++.++++.|-..-+-.
T Consensus       769 ~~l~~e~LS~----Q~HYDfGLRalKsVL~~AG~lkr~~  803 (3245)
T 3vkg_A          769 FKLCQEQLSA----QSHYDFGLRALKSVLVSAGGIKRKC  803 (3245)
T ss_dssp             HHHHHHSSCC----CTTCCCSHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHhCC----CCCCCCChHHHHHHHHHHHHHHHhh
Confidence            6554432221    1124578999999999987765543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.64  E-value=0.00038  Score=56.38  Aligned_cols=65  Identities=20%  Similarity=0.224  Sum_probs=42.1

Q ss_pred             cCCceEeeccCCCCC-----------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187           9 ADGGVVCIDEFDKMR-----------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~-----------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      ...+|+||||++.+.           ...+..|+..|+.....        ....+..|++++|...            .
T Consensus       112 ~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--------~~~~~v~vi~~tn~~~------------~  171 (297)
T 3b9p_A          112 MQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN--------PDGDRIVVLAATNRPQ------------E  171 (297)
T ss_dssp             TCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC--------------CEEEEEEESCGG------------G
T ss_pred             cCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccccc--------CCCCcEEEEeecCChh------------h
Confidence            456899999998773           34555667667643221        1123478889988742            2


Q ss_pred             CCCCCCCcccEEEEec
Q psy7187          78 FMPTILSRFDMIFIIK   93 (214)
Q Consensus        78 l~~~lldRFDL~~~~~   93 (214)
                      +.+++++||+..+.+.
T Consensus       172 l~~~l~~R~~~~i~~~  187 (297)
T 3b9p_A          172 LDEAALRRFTKRVYVS  187 (297)
T ss_dssp             BCHHHHHHCCEEEECC
T ss_pred             CCHHHHhhCCeEEEeC
Confidence            7788899999776654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.61  E-value=0.0002  Score=56.91  Aligned_cols=36  Identities=14%  Similarity=0.002  Sum_probs=33.2

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+.|.+..+++-|...|..+.++.|+.+|+..|+.
T Consensus       215 G~~~~dl~~l~~~a~~~a~~~~~~~i~~~~~~~a~~  250 (257)
T 1lv7_A          215 GFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKD  250 (257)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHH
Confidence            568999999999999999999999999999999975

>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=97.55  E-value=0.00043  Score=58.00  Aligned_cols=63  Identities=19%  Similarity=0.224  Sum_probs=44.5

Q ss_pred             CCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..+|+||||++.+..           ..++.|+..|+.-.          .-+..+.||||+|...            .|
T Consensus       143 ~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~----------~~~~~v~vI~atn~~~------------~l  200 (355)
T 2qp9_X          143 KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG----------NDSQGVLVLGATNIPW------------QL  200 (355)
T ss_dssp             SSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC-------------CCEEEEEEESCGG------------GS
T ss_pred             CCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccc----------ccCCCeEEEeecCCcc------------cC
Confidence            568999999999874           24666777776311          1134688999999853            27


Q ss_pred             CCCCCCcccEEEEecC
Q psy7187          79 MPTILSRFDMIFIIKD   94 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~   94 (214)
                      .+++++|||..+.+..
T Consensus       201 d~al~rRf~~~i~i~~  216 (355)
T 2qp9_X          201 DSAIRRRFERRIYIPL  216 (355)
T ss_dssp             CHHHHHTCCEEEECCC
T ss_pred             CHHHHcccCEEEEeCC
Confidence            7889999998876543

>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=97.54  E-value=0.00014  Score=60.05  Aligned_cols=63  Identities=19%  Similarity=0.224  Sum_probs=43.8

Q ss_pred             CCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..+|+||||++.+..           ..+..|+..|+.-.          ..+..+.||||+|...            .|
T Consensus       110 ~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~----------~~~~~v~vi~atn~~~------------~l  167 (322)
T 3eie_A          110 KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG----------NDSQGVLVLGATNIPW------------QL  167 (322)
T ss_dssp             SSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGG----------TSCCCEEEEEEESCGG------------GS
T ss_pred             CCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccc----------ccCCceEEEEecCChh------------hC
Confidence            448999999998754           34566777675311          0133588999999742            27


Q ss_pred             CCCCCCcccEEEEecC
Q psy7187          79 MPTILSRFDMIFIIKD   94 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~   94 (214)
                      .+++++|||..+.+..
T Consensus       168 d~al~~Rf~~~i~~~~  183 (322)
T 3eie_A          168 DSAIRRRFERRIYIPL  183 (322)
T ss_dssp             CHHHHHHCCEEEECCC
T ss_pred             CHHHHcccCeEEEeCC
Confidence            8899999998776543

>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=97.54  E-value=0.0011  Score=51.13  Aligned_cols=124  Identities=18%  Similarity=0.112  Sum_probs=75.8

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      ..++++|||++.++++.++.|+..|++.             +..+.+|.++|...            .+...+++|+ ..
T Consensus       126 ~~~vlviDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~t~~~~------------~~~~~l~~r~-~~  179 (250)
T 1njg_A          126 RFKVYLIDEVHMLSRHSFNALLKTLEEP-------------PEHVKFLLATTDPQ------------KLPVTILSRC-LQ  179 (250)
T ss_dssp             SSEEEEEETGGGSCHHHHHHHHHHHHSC-------------CTTEEEEEEESCGG------------GSCHHHHTTS-EE
T ss_pred             CceEEEEECcccccHHHHHHHHHHHhcC-------------CCceEEEEEeCChH------------hCCHHHHHHh-hh
Confidence            4579999999999999999999999852             44577777776531            2556677786 33


Q ss_pred             EEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHH-HhHhccCCCCCHHHHHHHHHHHHHHhcCCCc
Q psy7187          90 FIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYIN-YCRMRCGPRLTHEAGEKLKNRYVLMRNGSKE  168 (214)
Q Consensus        90 ~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~-~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~  168 (214)
                      +.+. +.+.+                               .+.+++. +++. ..+.+++++.+.|.+..     .   
T Consensus       180 i~l~-~l~~~-------------------------------e~~~~l~~~~~~-~~~~~~~~~~~~l~~~~-----~---  218 (250)
T 1njg_A          180 FHLK-ALDVE-------------------------------QIRHQLEHILNE-EHIAHEPRALQLLARAA-----E---  218 (250)
T ss_dssp             EECC-CCCHH-------------------------------HHHHHHHHHHHH-TTCCBCHHHHHHHHHHH-----T---
T ss_pred             ccCC-CCCHH-------------------------------HHHHHHHHHHHh-cCCCCCHHHHHHHHHHc-----C---
Confidence            3332 22221                               1111211 1111 12356777766665532     0   


Q ss_pred             CCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         169 DGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       169 ~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                              + .+|.+..+++-+-+    .....|+.+|+.+|+.+
T Consensus       219 --------G-~~~~~~~~~~~~~~----~~~~~i~~~~v~~~~~~  250 (250)
T 1njg_A          219 --------G-SLRDALSLTDQAIA----SGDGQVSTQAVSAMLGT  250 (250)
T ss_dssp             --------T-CHHHHHHHHHHHHT----TTTSSBCHHHHHHHSCC
T ss_pred             --------C-CHHHHHHHHHHHHh----ccCceecHHHHHHHhCC
Confidence                    1 57777777665532    23458999999998753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.52  E-value=0.00026  Score=59.01  Aligned_cols=137  Identities=13%  Similarity=0.050  Sum_probs=81.0

Q ss_pred             eEeeccCCCCCHH--HHHHHHHhhh---cCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          13 VVCIDEFDKMRED--DRVAIHEAME---QQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        13 v~~iDE~~~~~~~--~~~~L~e~me---~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      |++|||++.+...  ..+.|...++   +..+           +.++.+|+++|...-         ...+.+++.+||.
T Consensus       133 vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~-----------~~~~~~I~~t~~~~~---------~~~l~~~l~~r~~  192 (387)
T 2v1u_A          133 IIVLDEIDFLPKRPGGQDLLYRITRINQELGD-----------RVWVSLVGITNSLGF---------VENLEPRVKSSLG  192 (387)
T ss_dssp             EEEEETTTHHHHSTTHHHHHHHHHHGGGCC----------------CEEEEECSCSTT---------SSSSCHHHHTTTT
T ss_pred             EEEEccHhhhcccCCCChHHHhHhhchhhcCC-----------CceEEEEEEECCCch---------HhhhCHHHHhcCC
Confidence            9999999998765  5556655554   2211           456888898887521         0126778888987


Q ss_pred             EEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCC
Q psy7187          88 MIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSK  167 (214)
Q Consensus        88 L~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~  167 (214)
                      ...+...+.+.+.-..    ++.....                       .  ......+++++.+.+.++...      
T Consensus       193 ~~~i~l~~l~~~~~~~----il~~~~~-----------------------~--~~~~~~~~~~~~~~l~~~~~~------  237 (387)
T 2v1u_A          193 EVELVFPPYTAPQLRD----ILETRAE-----------------------E--AFNPGVLDPDVVPLCAALAAR------  237 (387)
T ss_dssp             SEECCBCCCCHHHHHH----HHHHHHH-----------------------H--HBCTTTBCSSHHHHHHHHHHS------
T ss_pred             CeEEeeCCCCHHHHHH----HHHHHHH-----------------------h--hccCCCCCHHHHHHHHHHHHH------
Confidence            5333333333221111    1111110                       0  000124677777777665421      


Q ss_pred             cCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         168 EDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       168 ~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                              .+=.+|.+..+++.+...|....+..|+.+|+..|+.
T Consensus       238 --------~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~  274 (387)
T 2v1u_A          238 --------EHGDARRALDLLRVAGEIAERRREERVRREHVYSARA  274 (387)
T ss_dssp             --------SSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHH
T ss_pred             --------hccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence                    0115788888899888888888889999999998864

>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=97.51  E-value=0.00074  Score=62.05  Aligned_cols=120  Identities=10%  Similarity=0.088  Sum_probs=63.6

Q ss_pred             cCCceEeeccCCCC---------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCC
Q psy7187           9 ADGGVVCIDEFDKM---------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFM   79 (214)
Q Consensus         9 a~~Gv~~iDE~~~~---------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~   79 (214)
                      +.++|+||||++.+         ..+..+.|...++.+               ++.+|+++|+..-       ...+.+.
T Consensus       277 ~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~---------------~~~~I~at~~~~~-------~~~~~~d  334 (758)
T 1r6b_X          277 DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG---------------KIRVIGSTTYQEF-------SNIFEKD  334 (758)
T ss_dssp             SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC---------------CCEEEEEECHHHH-------HCCCCCT
T ss_pred             cCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCC---------------CeEEEEEeCchHH-------hhhhhcC
Confidence            45799999999998         334455666666643               4678888887420       0122467


Q ss_pred             CCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHH
Q psy7187          80 PTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNR  158 (214)
Q Consensus        80 ~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~  158 (214)
                      ++|.+||+. + ..+.++.+....+-..+.......       ..-.++.+.+.....++..++. +.+++.+.+.+...
T Consensus       335 ~aL~~Rf~~-i-~v~~p~~~e~~~il~~l~~~~~~~-------~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~lld~a  405 (758)
T 1r6b_X          335 RALARRFQK-I-DITEPSIEETVQIINGLKPKYEAH-------HDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEA  405 (758)
T ss_dssp             TSSGGGEEE-E-ECCCCCHHHHHHHHHHHHHHHHHH-------HTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHH
T ss_pred             HHHHhCceE-E-EcCCCCHHHHHHHHHHHHHHHHHh-------cCCCCCHHHHHHHHHHhhhhcccccCchHHHHHHHHH
Confidence            889999983 3 334444443334333333321110       1123444555554444444332 23444555555443


Q ss_pred             H
Q psy7187         159 Y  159 (214)
Q Consensus       159 y  159 (214)
                      .
T Consensus       406 ~  406 (758)
T 1r6b_X          406 G  406 (758)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.40  E-value=2.6e-05  Score=56.86  Aligned_cols=48  Identities=10%  Similarity=0.276  Sum_probs=40.3

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      .|.+..|++|++||||++.++++.+..|++.|+.             .+.++.+|+|+|..
T Consensus        69 ~~~~~~a~~g~l~ldei~~l~~~~q~~Ll~~l~~-------------~~~~~~~I~~t~~~  116 (145)
T 3n70_A           69 NDFIALAQGGTLVLSHPEHLTREQQYHLVQLQSQ-------------EHRPFRLIGIGDTS  116 (145)
T ss_dssp             HHHHHHHTTSCEEEECGGGSCHHHHHHHHHHHHS-------------SSCSSCEEEEESSC
T ss_pred             hcHHHHcCCcEEEEcChHHCCHHHHHHHHHHHhh-------------cCCCEEEEEECCcC
Confidence            3566788999999999999999999999999932             24567899999974

>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=97.38  E-value=0.00027  Score=58.02  Aligned_cols=64  Identities=23%  Similarity=0.437  Sum_probs=49.1

Q ss_pred             CCceEeeccCCCCC-HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187          10 DGGVVCIDEFDKMR-EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~-~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      .++|++|||++.++ .+.++.|+..|++.             +..+.+|+++|+..            .+.++|.+||. 
T Consensus       105 ~~~vliiDEi~~l~~~~~~~~L~~~le~~-------------~~~~~iI~~~n~~~------------~l~~~l~sR~~-  158 (324)
T 3u61_B          105 RQKVIVIDEFDRSGLAESQRHLRSFMEAY-------------SSNCSIIITANNID------------GIIKPLQSRCR-  158 (324)
T ss_dssp             CEEEEEEESCCCGGGHHHHHHHHHHHHHH-------------GGGCEEEEEESSGG------------GSCTTHHHHSE-
T ss_pred             CCeEEEEECCcccCcHHHHHHHHHHHHhC-------------CCCcEEEEEeCCcc------------ccCHHHHhhCc-
Confidence            67899999999999 99999999999863             35678888998852            37899999995 


Q ss_pred             EEEecCCCCccc
Q psy7187          89 IFIIKDEHDETR  100 (214)
Q Consensus        89 ~~~~~~~~~~~~  100 (214)
                      ++.+ ..++.+.
T Consensus       159 ~i~~-~~~~~~e  169 (324)
T 3u61_B          159 VITF-GQPTDED  169 (324)
T ss_dssp             EEEC-CCCCHHH
T ss_pred             EEEe-CCCCHHH
Confidence            3433 3444333

>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=97.35  E-value=0.0011  Score=54.09  Aligned_cols=54  Identities=24%  Similarity=0.318  Sum_probs=42.2

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ++++|++|||++.++++.++.|+..|++.             |..+.+|.++|...            .+.+++.+||.
T Consensus       109 ~~~~vliiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~i~~~~~~~------------~l~~~l~sr~~  162 (327)
T 1iqp_A          109 ASFKIIFLDEADALTQDAQQALRRTMEMF-------------SSNVRFILSCNYSS------------KIIEPIQSRCA  162 (327)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHT-------------TTTEEEEEEESCGG------------GSCHHHHHTEE
T ss_pred             CCCeEEEEeCCCcCCHHHHHHHHHHHHhc-------------CCCCeEEEEeCCcc------------ccCHHHHhhCc
Confidence            67899999999999999999999999964             23456667776531            26677888886

>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=97.22  E-value=0.0014  Score=50.75  Aligned_cols=136  Identities=19%  Similarity=0.267  Sum_probs=79.6

Q ss_pred             cCCceEeeccCCCCCHHH--HHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           9 ADGGVVCIDEFDKMREDD--RVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~--~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      ...++++|||++.++.+.  .+.|++.++...    ..+       ...+|.++|.....+        ..+.+.+.+||
T Consensus       103 ~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~----~~~-------~~~ii~~~~~~~~~~--------~~~~~~l~~r~  163 (242)
T 3bos_A          103 EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVA----EQK-------RGSLIVSASASPMEA--------GFVLPDLVSRM  163 (242)
T ss_dssp             GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHH----HHC-------SCEEEEEESSCTTTT--------TCCCHHHHHHH
T ss_pred             cCCCEEEEeccccccCCHHHHHHHHHHHHHHH----HcC-------CCeEEEEcCCCHHHH--------HHhhhhhhhHh
Confidence            457899999999998765  777777766411    011       123555555332111        11336677888


Q ss_pred             c--EEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhc
Q psy7187          87 D--MIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRN  164 (214)
Q Consensus        87 D--L~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~  164 (214)
                      +  .++.+... +.+....+..+                           ++   +. ....+++++.++|.+.+     
T Consensus       164 ~~~~~i~l~~~-~~~~~~~~l~~---------------------------~~---~~-~~~~~~~~~~~~l~~~~-----  206 (242)
T 3bos_A          164 HWGLTYQLQPM-MDDEKLAALQR---------------------------RA---AM-RGLQLPEDVGRFLLNRM-----  206 (242)
T ss_dssp             HHSEEEECCCC-CGGGHHHHHHH---------------------------HH---HH-TTCCCCHHHHHHHHHHT-----
T ss_pred             hcCceEEeCCC-CHHHHHHHHHH---------------------------HH---HH-cCCCCCHHHHHHHHHHc-----
Confidence            5  55555433 32222221111                           11   11 12357888888776542     


Q ss_pred             CCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         165 GSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       165 ~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                                  +=++|.+..+++-+...|.... ..|+.+|+.+++.+
T Consensus       207 ------------~g~~r~l~~~l~~~~~~a~~~~-~~It~~~v~~~l~~  242 (242)
T 3bos_A          207 ------------ARDLRTLFDVLDRLDKASMVHQ-RKLTIPFVKEMLRL  242 (242)
T ss_dssp             ------------TTCHHHHHHHHHHHHHHHHHHT-CCCCHHHHHHHHTC
T ss_pred             ------------cCCHHHHHHHHHHHHHHHHHhC-CCCcHHHHHHHhhC
Confidence                        1157888888888877775555 56999999999863

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.19  E-value=0.00093  Score=55.18  Aligned_cols=63  Identities=22%  Similarity=0.213  Sum_probs=43.6

Q ss_pred             CCceEeeccCCCCCH-----------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKMRE-----------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~-----------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..+|+||||++.+..           ..+..|+..|+.-.          .-+.++.||||+|....            +
T Consensus       105 ~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~----------~~~~~v~vI~atn~~~~------------l  162 (322)
T 1xwi_A          105 KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG----------VDNDGILVLGATNIPWV------------L  162 (322)
T ss_dssp             SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSS----------SCCTTEEEEEEESCTTT------------S
T ss_pred             CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccc----------ccCCCEEEEEecCCccc------------C
Confidence            457999999998722           34556666665311          01346889999998532            7


Q ss_pred             CCCCCCcccEEEEecC
Q psy7187          79 MPTILSRFDMIFIIKD   94 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~   94 (214)
                      .+++++|||..+.+.-
T Consensus       163 d~al~rRf~~~i~i~~  178 (322)
T 1xwi_A          163 DSAIRRRFEKRIYIPL  178 (322)
T ss_dssp             CHHHHHTCCEEEECCC
T ss_pred             CHHHHhhcCeEEEeCC
Confidence            7899999998776643

>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=97.05  E-value=0.00041  Score=60.71  Aligned_cols=60  Identities=23%  Similarity=0.268  Sum_probs=44.0

Q ss_pred             ceEeeccCCCC-----------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187          12 GVVCIDEFDKM-----------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus        12 Gv~~iDE~~~~-----------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      +++||||++.+           +...+..|+..|+...           -+.++.||||+|+...            |.+
T Consensus       299 ~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~-----------~~~~v~vIaaTn~~~~------------Ld~  355 (489)
T 3hu3_A          299 AIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK-----------QRAHVIVMAATNRPNS------------IDP  355 (489)
T ss_dssp             EEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSC-----------TTSCEEEEEEESCGGG------------BCG
T ss_pred             cEEEecchhhhccccccccchHHHHHHHHHHHHhhccc-----------cCCceEEEEecCCccc------------cCH
Confidence            59999999544           3467788999998421           1456899999998522            677


Q ss_pred             CCCC--cccEEEEecC
Q psy7187          81 TILS--RFDMIFIIKD   94 (214)
Q Consensus        81 ~lld--RFDL~~~~~~   94 (214)
                      .+.+  ||+..+.+..
T Consensus       356 al~r~gRf~~~i~i~~  371 (489)
T 3hu3_A          356 ALRRFGRFDREVDIGI  371 (489)
T ss_dssp             GGGSTTSSCEEEECCC
T ss_pred             HHhCCCcCceEEEeCC
Confidence            8877  9998776643

>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=97.03  E-value=0.0032  Score=50.98  Aligned_cols=54  Identities=26%  Similarity=0.393  Sum_probs=43.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +.++|++|||++.++.+.++.|+..|++.             |..+.+|.++|...            .+.+++.+||.
T Consensus       101 ~~~~vliiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~i~~~~~~~------------~l~~~l~sr~~  154 (319)
T 2chq_A          101 APFKIIFLDEADALTADAQAALRRTMEMY-------------SKSCRFILSCNYVS------------RIIEPIQSRCA  154 (319)
T ss_dssp             CCCEEEEEETGGGSCHHHHHTTGGGTSSS-------------SSSEEEEEEESCGG------------GSCHHHHTTCE
T ss_pred             CCceEEEEeCCCcCCHHHHHHHHHHHHhc-------------CCCCeEEEEeCChh------------hcchHHHhhCe
Confidence            45789999999999999999999999862             45677888887632            26788899986

>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=96.99  E-value=0.0024  Score=55.71  Aligned_cols=64  Identities=25%  Similarity=0.285  Sum_probs=42.3

Q ss_pred             CceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      ..|+||||++.+..              ..+..|+..|+.-       +    -+....||+|+|....           
T Consensus       109 p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~-------~----~~~~viVIaaTn~~~~-----------  166 (476)
T 2ce7_A          109 PCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGF-------D----SKEGIIVMAATNRPDI-----------  166 (476)
T ss_dssp             SEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHS-------C----GGGTEEEEEEESCGGG-----------
T ss_pred             CCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhcc-------C----CCCCEEEEEecCChhh-----------
Confidence            35999999988754              2456777777621       0    0346889999998521           


Q ss_pred             cCCCCCCC--cccEEEEecCCCCc
Q psy7187          77 DFMPTILS--RFDMIFIIKDEHDE   98 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~~~~~~~   98 (214)
                       +.+.++.  |||..+.+. .++.
T Consensus       167 -Ld~allR~gRFd~~i~i~-~Pd~  188 (476)
T 2ce7_A          167 -LDPALLRPGRFDKKIVVD-PPDM  188 (476)
T ss_dssp             -SCGGGGSTTSSCEEEECC-CCCH
T ss_pred             -hchhhcccCcceeEeecC-CCCH
Confidence             5566664  999877654 3443

>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=96.99  E-value=0.0023  Score=53.36  Aligned_cols=132  Identities=15%  Similarity=0.089  Sum_probs=76.6

Q ss_pred             ceEeeccCCCCCHHH-HHH-HHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          12 GVVCIDEFDKMREDD-RVA-IHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~-~~~-L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      +|++|||++.+.... .+. +...++..              .++.+|+++|....         ...+.+++++||+..
T Consensus       135 ~vlilDEi~~l~~~~~~~~~l~~l~~~~--------------~~~~iI~~t~~~~~---------~~~l~~~l~sr~~~~  191 (384)
T 2qby_B          135 AIIYLDEVDTLVKRRGGDIVLYQLLRSD--------------ANISVIMISNDINV---------RDYMEPRVLSSLGPS  191 (384)
T ss_dssp             EEEEEETTHHHHHSTTSHHHHHHHHTSS--------------SCEEEEEECSSTTT---------TTTSCHHHHHTCCCE
T ss_pred             CEEEEECHHHhccCCCCceeHHHHhcCC--------------cceEEEEEECCCch---------HhhhCHHHHhcCCCe
Confidence            399999999986542 334 44433321              46788888887421         012667788898765


Q ss_pred             EEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcC
Q psy7187          90 FIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKED  169 (214)
Q Consensus        90 ~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~  169 (214)
                      +.+.. .+.+.-..    ++..+...                         ..-...+++++.+.+.++...        
T Consensus       192 i~l~~-l~~~~~~~----il~~~~~~-------------------------~~~~~~~~~~~~~~i~~~~~~--------  233 (384)
T 2qby_B          192 VIFKP-YDAEQLKF----ILSKYAEY-------------------------GLIKGTYDDEILSYIAAISAK--------  233 (384)
T ss_dssp             EEECC-CCHHHHHH----HHHHHHHH-------------------------TSCTTSCCSHHHHHHHHHHHT--------
T ss_pred             EEECC-CCHHHHHH----HHHHHHHh-------------------------hcccCCcCHHHHHHHHHHHHh--------
Confidence            54433 33222111    22211110                         000124677777777665421        


Q ss_pred             CCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         170 GEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       170 ~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                            .+=.+|....+++.|...|.  ....|+.+|+..|+.
T Consensus       234 ------~~G~~r~a~~~l~~a~~~a~--~~~~i~~~~v~~~~~  268 (384)
T 2qby_B          234 ------EHGDARKAVNLLFRAAQLAS--GGGIIRKEHVDKAIV  268 (384)
T ss_dssp             ------TCCCHHHHHHHHHHHHHHTT--SSSCCCHHHHHHHHH
T ss_pred             ------ccCCHHHHHHHHHHHHHHhc--CCCccCHHHHHHHHH
Confidence                  01147777788888887877  667899999988864

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.97  E-value=0.00081  Score=54.76  Aligned_cols=81  Identities=10%  Similarity=0.154  Sum_probs=46.1

Q ss_pred             CCceEeeccCCCCCH-------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          10 DGGVVCIDEFDKMRE-------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~-------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      ..+|+||||++++..             .+...|++.|+..+..-........-..+..||+|+|....           
T Consensus        99 ~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~-----------  167 (293)
T 3t15_A           99 NMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFST-----------  167 (293)
T ss_dssp             SCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC-----------
T ss_pred             CCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCccc-----------
Confidence            578999999987654             35588999998654322111111222456899999997532           


Q ss_pred             cCCCCCC--CcccEEEEecCCCCccccHHHH
Q psy7187          77 DFMPTIL--SRFDMIFIIKDEHDETRDITLA  105 (214)
Q Consensus        77 ~l~~~ll--dRFDL~~~~~~~~~~~~d~~ia  105 (214)
                       ++++++  +|||.++.+   |+.+....|.
T Consensus       168 -ld~al~R~~R~d~~i~~---P~~~~r~~Il  194 (293)
T 3t15_A          168 -LYAPLIRDGRMEKFYWA---PTREDRIGVC  194 (293)
T ss_dssp             ---CHHHHHHHEEEEEEC---CCHHHHHHHH
T ss_pred             -CCHHHhCCCCCceeEeC---cCHHHHHHHH
Confidence             778888  699987764   3444444443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.90  E-value=0.0025  Score=55.32  Aligned_cols=119  Identities=10%  Similarity=0.072  Sum_probs=67.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +.++|+|||    ...+..+.|+.+|+.|               ++.+|+|+|+..-       ...+.+.++|.+||..
T Consensus       266 ~~~~iLfiD----~~~~a~~~L~~~L~~g---------------~v~vI~at~~~e~-------~~~~~~~~al~~Rf~~  319 (468)
T 3pxg_A          266 AGNIILFID----AAIDASNILKPSLARG---------------ELQCIGATTLDEY-------RKYIEKDAALERRFQP  319 (468)
T ss_dssp             CCCCEEEEC----C--------CCCTTSS---------------SCEEEEECCTTTT-------HHHHTTCSHHHHSEEE
T ss_pred             cCCeEEEEe----CchhHHHHHHHhhcCC---------------CEEEEecCCHHHH-------HHHhhcCHHHHHhCcc
Confidence            457899999    4556677788888865               4678999998631       1224578999999974


Q ss_pred             EEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHHHH
Q psy7187          89 IFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        89 ~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~~~  162 (214)
                       +.+ +.++.+....|..+++.    ...   ......++.+.+.....++..++. ..+++.+.+++...-...
T Consensus       320 -i~v-~~p~~e~~~~iL~~~~~----~~~---~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~~~  385 (468)
T 3pxg_A          320 -IQV-DQPSVDESIQILQGLRD----RYE---AHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKV  385 (468)
T ss_dssp             -EEC-CCCCHHHHHHHHHHTTT----TSG---GGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHH
T ss_pred             -cee-CCCCHHHHHHHHHHHHH----HHH---HhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHHHH
Confidence             433 44444433333222211    110   123345677788877788777543 346778888886655433

>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=96.89  E-value=4.6e-05  Score=60.94  Aligned_cols=36  Identities=19%  Similarity=0.184  Sum_probs=31.5

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+.|.+..+++-|...|....++.|+.+|+.+|+.
T Consensus       216 g~~g~dl~~l~~~a~~~a~~~~~~~i~~~~~~~a~~  251 (268)
T 2r62_A          216 GLAGADLANIINEAALLAGRNNQKEVRQQHLKEAVE  251 (268)
T ss_dssp             SSCHHHHHHHHHHHHHTTSSSCCCSCCHHHHHTSCT
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccCCcCHHHHHHHHH
Confidence            567789999999999999888889999999998864

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.86  E-value=0.02  Score=49.07  Aligned_cols=129  Identities=16%  Similarity=0.222  Sum_probs=78.8

Q ss_pred             ceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      .|+||||++.+-.              .++..|+.-|+.-.           -..+..||||+|-...            
T Consensus       277 ~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~-----------~~~~ViVIaATNrpd~------------  333 (437)
T 4b4t_I          277 SIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD-----------DRGDVKVIMATNKIET------------  333 (437)
T ss_dssp             EEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCC-----------CSSSEEEEEEESCSTT------------
T ss_pred             cEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcC-----------CCCCEEEEEeCCChhh------------
Confidence            6899999997522              23445666565210           1234788999987543            


Q ss_pred             CCCCCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHH
Q psy7187          78 FMPTILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKL  155 (214)
Q Consensus        78 l~~~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i  155 (214)
                      |.++|+-  |||..+.+. .++.+..    ..|++.+......     ...++                       .+.|
T Consensus       334 LDpALlRpGRfD~~I~v~-lPd~~~R----~~Il~~~l~~~~l-----~~dvd-----------------------l~~L  380 (437)
T 4b4t_I          334 LDPALIRPGRIDRKILFE-NPDLSTK----KKILGIHTSKMNL-----SEDVN-----------------------LETL  380 (437)
T ss_dssp             CCTTSSCTTTEEEEECCC-CCCHHHH----HHHHHHHHTTSCB-----CSCCC-----------------------HHHH
T ss_pred             cCHHHhcCCceeEEEEcC-CcCHHHH----HHHHHHHhcCCCC-----CCcCC-----------------------HHHH
Confidence            8888886  999887653 4443332    3455555432110     01111                       1111


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+     +           ..++|.+.+..+++-|.-.|--+.+..|+.+|+..|+.
T Consensus       381 A~-----~-----------T~GfSGADI~~l~~eA~~~Air~~~~~It~eDf~~Al~  421 (437)
T 4b4t_I          381 VT-----T-----------KDDLSGADIQAMCTEAGLLALRERRMQVTAEDFKQAKE  421 (437)
T ss_dssp             HH-----H-----------CCSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHH
T ss_pred             HH-----h-----------CCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            11     0           13567788888888887777778889999999999974

>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=96.83  E-value=0.0035  Score=52.23  Aligned_cols=145  Identities=8%  Similarity=-0.037  Sum_probs=83.4

Q ss_pred             eEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEEe
Q psy7187          13 VVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFII   92 (214)
Q Consensus        13 v~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~~   92 (214)
                      |++|||++.++.+.+..|...+++..    ..+     +.++.+|+++|...         ....+.+++.+||....+.
T Consensus       128 vlilDE~~~l~~~~~~~L~~~~~~~~----~~~-----~~~~~iI~~~~~~~---------~~~~l~~~~~~r~~~~~i~  189 (389)
T 1fnn_A          128 FLVLDDAFNLAPDILSTFIRLGQEAD----KLG-----AFRIALVIVGHNDA---------VLNNLDPSTRGIMGKYVIR  189 (389)
T ss_dssp             EEEEETGGGSCHHHHHHHHHHTTCHH----HHS-----SCCEEEEEEESSTH---------HHHTSCHHHHHHHTTCEEE
T ss_pred             EEEEECccccchHHHHHHHHHHHhCC----CCC-----cCCEEEEEEECCch---------HHHHhCHHhhhcCCCceEE
Confidence            89999999999999999999887521    000     13567777776531         0012556666777642222


Q ss_pred             cCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCC
Q psy7187          93 KDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEK  172 (214)
Q Consensus        93 ~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~  172 (214)
                      ..+.+.+   .+.+.+ ...                       +..+.  ....+++++.+.+.+...  +....     
T Consensus       190 ~~pl~~~---~~~~~l-~~~-----------------------~~~~~--~~~~~~~~~~~~l~~~~~--~~~~~-----  233 (389)
T 1fnn_A          190 FSPYTKD---QIFDIL-LDR-----------------------AKAGL--AEGSYSEDILQMIADITG--AQTPL-----  233 (389)
T ss_dssp             CCCCBHH---HHHHHH-HHH-----------------------HHHHB--CTTSSCHHHHHHHHHHHS--BSSTT-----
T ss_pred             eCCCCHH---HHHHHH-HHH-----------------------HHhhc--CCCCCCHHHHHHHHHHHh--hcccC-----
Confidence            2222221   111111 111                       10000  012467777777765431  00000     


Q ss_pred             ccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         173 KLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       173 ~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                       ...+=.+|.+..+++.|...|..+.+..|+.+|+..|+.
T Consensus       234 -~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~  272 (389)
T 1fnn_A          234 -DTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  272 (389)
T ss_dssp             -CTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             -CCCCCcHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Confidence             000125888899999999999888889999999998864

>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=96.80  E-value=0.0051  Score=52.98  Aligned_cols=133  Identities=12%  Similarity=0.120  Sum_probs=80.1

Q ss_pred             CCceEeeccCCCCCH--HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          10 DGGVVCIDEFDKMRE--DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~--~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ..+|++|||++.+..  ..++.|+..|+.-.    ..|       ...|+++.||...         ...+.+.|++||+
T Consensus       194 ~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~----~~~-------~~iIitt~~~~~~---------l~~l~~~L~sR~~  253 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGKTGVQTELFHTFNELH----DSG-------KQIVICSDREPQK---------LSEFQDRLVSRFQ  253 (440)
T ss_dssp             TCSEEEEECGGGGSSCHHHHHHHHHHHHHHH----TTT-------CEEEEEESSCGGG---------CSSCCHHHHHHHH
T ss_pred             CCCEEEEeCcccccCChHHHHHHHHHHHHHH----HCC-------CeEEEEECCCHHH---------HHHHHHHHHhhcc
Confidence            578999999999876  56777777765311    011       1344555554311         1126678888886


Q ss_pred             --EEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcC
Q psy7187          88 --MIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNG  165 (214)
Q Consensus        88 --L~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~  165 (214)
                        +++.+.. ++.+...    .++..                       +   ++. ....+++++.++|....      
T Consensus       254 ~g~~i~l~~-p~~e~r~----~iL~~-----------------------~---~~~-~~~~i~~e~l~~la~~~------  295 (440)
T 2z4s_A          254 MGLVAKLEP-PDEETRK----SIARK-----------------------M---LEI-EHGELPEEVLNFVAENV------  295 (440)
T ss_dssp             SSBCCBCCC-CCHHHHH----HHHHH-----------------------H---HHH-HTCCCCTTHHHHHHHHC------
T ss_pred             CCeEEEeCC-CCHHHHH----HHHHH-----------------------H---HHH-cCCCCCHHHHHHHHHhc------
Confidence              4443322 2222111    12211                       1   111 12357788877775431      


Q ss_pred             CCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         166 SKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       166 ~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                 +=++|.++.+++.+.+.|.+.++ .|+.+++.+|+.
T Consensus       296 -----------~gn~R~l~~~L~~~~~~a~~~~~-~It~~~~~~~l~  330 (440)
T 2z4s_A          296 -----------DDNLRRLRGAIIKLLVYKETTGK-EVDLKEAILLLK  330 (440)
T ss_dssp             -----------CSCHHHHHHHHHHHHHHHHHSSS-CCCHHHHHHHTS
T ss_pred             -----------CCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHH
Confidence                       12689999999999999988875 699999998864

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.016  Score=49.82  Aligned_cols=130  Identities=20%  Similarity=0.264  Sum_probs=78.6

Q ss_pred             CceEeeccCCCCC-----------H---HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMR-----------E---DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~-----------~---~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      .-|+||||++.+-           .   .....|+..|+.-.      +     ..+..||||+|-...           
T Consensus       275 P~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~------~-----~~~ViVIaaTNrp~~-----------  332 (434)
T 4b4t_M          275 PTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS------S-----DDRVKVLAATNRVDV-----------  332 (434)
T ss_dssp             SEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC------S-----SCSSEEEEECSSCCC-----------
T ss_pred             CeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC------C-----CCCEEEEEeCCCchh-----------
Confidence            3589999998641           1   13445666665210      0     224688999987543           


Q ss_pred             cCCCCCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHH
Q psy7187          77 DFMPTILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEK  154 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~  154 (214)
                       |.++|+.  |||..+.+. .|+.+..    ..|++.+.....     ....++.                       +.
T Consensus       333 -LD~AllRpGRfD~~I~i~-lPd~~~R----~~Il~~~~~~~~-----~~~dvdl-----------------------~~  378 (434)
T 4b4t_M          333 -LDPALLRSGRLDRKIEFP-LPSEDSR----AQILQIHSRKMT-----TDDDINW-----------------------QE  378 (434)
T ss_dssp             -CCTTTCSTTSEEEEEECC-CCCHHHH----HHHHHHHHHHSC-----BCSCCCH-----------------------HH
T ss_pred             -cCHhHhcCCceeEEEEeC-CcCHHHH----HHHHHHHhcCCC-----CCCcCCH-----------------------HH
Confidence             8889977  999988874 3454333    334554433211     0111111                       11


Q ss_pred             HHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         155 LKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       155 i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      |.+     +           ..++|.+.+..+++-|.-.|--+.+..|+.+|+.+|+.
T Consensus       379 lA~-----~-----------t~G~sGADi~~l~~eA~~~a~r~~~~~i~~~Df~~Al~  420 (434)
T 4b4t_M          379 LAR-----S-----------TDEFNGAQLKAVTVEAGMIALRNGQSSVKHEDFVEGIS  420 (434)
T ss_dssp             HHH-----H-----------CSSCCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             HHH-----h-----------CCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            111     0           13467777888888777777777888999999999975

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.78  E-value=0.019  Score=48.88  Aligned_cols=129  Identities=12%  Similarity=0.143  Sum_probs=78.8

Q ss_pred             ceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      .|+||||++.+-.              .++..|+.-|+.-.      +     ..+..||||+|-...            
T Consensus       243 ~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~------~-----~~~V~vIaATNrpd~------------  299 (405)
T 4b4t_J          243 SIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE------T-----SKNIKIIMATNRLDI------------  299 (405)
T ss_dssp             EEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT------C-----CCCEEEEEEESCSSS------------
T ss_pred             ceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC------C-----CCCeEEEeccCChhh------------
Confidence            6899999998632              14556666675210      0     224678999987533            


Q ss_pred             CCCCCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHH
Q psy7187          78 FMPTILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKL  155 (214)
Q Consensus        78 l~~~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i  155 (214)
                      |.++|+-  |||..+.+.- |+.+..    ..|++.+.....     ....++                       .+.|
T Consensus       300 LDpAllRpGRfD~~I~i~l-Pd~~~R----~~Il~~~~~~~~-----l~~dvd-----------------------l~~l  346 (405)
T 4b4t_J          300 LDPALLRPGRIDRKIEFPP-PSVAAR----AEILRIHSRKMN-----LTRGIN-----------------------LRKV  346 (405)
T ss_dssp             SCHHHHSTTSSCCEEECCC-CCHHHH----HHHHHHHHTTSB-----CCSSCC-----------------------HHHH
T ss_pred             CCHhHcCCCcCceEEEcCC-cCHHHH----HHHHHHHhcCCC-----CCccCC-----------------------HHHH
Confidence            7788875  9998888743 443332    345555543211     001111                       1111


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+     +           ..+.|.+.+..+++-|.-.|--+.+..|+.+|+..|+.
T Consensus       347 A~-----~-----------t~G~SGADi~~l~~eA~~~Air~~~~~vt~~Df~~Al~  387 (405)
T 4b4t_J          347 AE-----K-----------MNGCSGADVKGVCTEAGMYALRERRIHVTQEDFELAVG  387 (405)
T ss_dssp             HH-----H-----------CCSCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             HH-----H-----------CCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            11     0           13467777888888777777667888999999999874

>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=96.75  E-value=0.0059  Score=52.63  Aligned_cols=62  Identities=23%  Similarity=0.247  Sum_probs=44.6

Q ss_pred             CCceEeeccCCCCC-----------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          10 DGGVVCIDEFDKMR-----------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~-----------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      ..+|+||||++.+.           ...++.|+..|+.-.          .-+.++.||+|+|+..            .+
T Consensus       227 ~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~----------~~~~~v~vI~atn~~~------------~l  284 (444)
T 2zan_A          227 KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG----------VDNDGILVLGATNIPW------------VL  284 (444)
T ss_dssp             CSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSS----------CCCSSCEEEEEESCGG------------GS
T ss_pred             CCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcc----------cCCCCEEEEecCCCcc------------cc
Confidence            45899999999983           245666777776421          0145689999999852            27


Q ss_pred             CCCCCCcccEEEEec
Q psy7187          79 MPTILSRFDMIFIIK   93 (214)
Q Consensus        79 ~~~lldRFDL~~~~~   93 (214)
                      .+++++|||.++.+.
T Consensus       285 d~al~rRf~~~i~i~  299 (444)
T 2zan_A          285 DSAIRRRFEKRIYIP  299 (444)
T ss_dssp             CHHHHTTCCEEEECC
T ss_pred             CHHHHhhcceEEEeC
Confidence            789999999877664

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.71  E-value=0.044  Score=47.14  Aligned_cols=130  Identities=17%  Similarity=0.187  Sum_probs=78.8

Q ss_pred             CceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      ..|+||||++.+-.              .++..|+.-|+.-.      +     .....||||+|-...           
T Consensus       275 P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~------~-----~~~vivI~ATNrp~~-----------  332 (437)
T 4b4t_L          275 PCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD------N-----LGQTKIIMATNRPDT-----------  332 (437)
T ss_dssp             SEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS------C-----TTSSEEEEEESSTTS-----------
T ss_pred             CceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc------C-----CCCeEEEEecCCchh-----------
Confidence            46899999997531              23456777776311      0     124678999986532           


Q ss_pred             cCCCCCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHH
Q psy7187          77 DFMPTILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEK  154 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~  154 (214)
                       |.++|+-  |||..+.+. .|+....    ..|++.+......     ...++.                       ..
T Consensus       333 -LDpAllRpGRfD~~I~i~-lPd~~~R----~~Il~~~~~~~~~-----~~d~dl-----------------------~~  378 (437)
T 4b4t_L          333 -LDPALLRPGRLDRKVEIP-LPNEAGR----LEIFKIHTAKVKK-----TGEFDF-----------------------EA  378 (437)
T ss_dssp             -SCTTTTSTTSEEEEECCC-CCCHHHH----HHHHHHHHHTSCB-----CSCCCH-----------------------HH
T ss_pred             -hCHHHhCCCccceeeecC-CcCHHHH----HHHHHHHhcCCCC-----CcccCH-----------------------HH
Confidence             7888875  599888764 3444333    3455544432111     011111                       11


Q ss_pred             HHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         155 LKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       155 i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      |.+     +           ..++|.+.+..+++-|.-.|--+.++.|+.+|+..|+.
T Consensus       379 lA~-----~-----------t~G~sGADi~~l~~eA~~~air~~~~~i~~~d~~~Al~  420 (437)
T 4b4t_L          379 AVK-----M-----------SDGFNGADIRNCATEAGFFAIRDDRDHINPDDLMKAVR  420 (437)
T ss_dssp             HHH-----T-----------CCSCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHH-----h-----------CCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            110     0           13567778888888887777778888999999998874

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.67  E-value=0.0036  Score=53.77  Aligned_cols=130  Identities=19%  Similarity=0.197  Sum_probs=79.2

Q ss_pred             ceEeeccCCCCC--------------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKMR--------------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~~--------------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      .|+|+||++.+-              ..++..|+..|+.-.      +     ..+..||||+|-...            
T Consensus       267 ~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~------~-----~~~v~vI~aTN~~~~------------  323 (428)
T 4b4t_K          267 SIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD------Q-----STNVKVIMATNRADT------------  323 (428)
T ss_dssp             EEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC------S-----SCSEEEEEEESCSSS------------
T ss_pred             CeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC------C-----CCCEEEEEecCChhh------------
Confidence            689999997531              124566777776310      0     124678999986532            


Q ss_pred             CCCCCCC--cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHH
Q psy7187          78 FMPTILS--RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKL  155 (214)
Q Consensus        78 l~~~lld--RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i  155 (214)
                      |.++|+-  |||..+.+.+.++.....    .|++.+.....     .                    .+.+.   .+.|
T Consensus       324 LD~AllRpGRfd~~I~~p~lPd~~~R~----~Il~~~~~~~~-----l--------------------~~~~d---l~~l  371 (428)
T 4b4t_K          324 LDPALLRPGRLDRKIEFPSLRDRRERR----LIFGTIASKMS-----L--------------------APEAD---LDSL  371 (428)
T ss_dssp             CCHHHHSSSSEEEEEECCSSCCHHHHH----HHHHHHHHSSC-----B--------------------CTTCC---HHHH
T ss_pred             cChhhhcCCcceEEEEcCCCCCHHHHH----HHHHHHhcCCC-----C--------------------CcccC---HHHH
Confidence            7788875  999988886666654333    34444433211     0                    11111   1111


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ..     +           ..++|.+.+..+++-|.-.|--+.+..|+.+|+.+|+.
T Consensus       372 A~-----~-----------t~G~sgadi~~l~~eA~~~a~r~~~~~i~~~d~~~A~~  412 (428)
T 4b4t_K          372 II-----R-----------NDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLEEAYA  412 (428)
T ss_dssp             HH-----H-----------TTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HH-----H-----------CCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH
Confidence            11     1           13467777888888777777777888999999999863

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.63  E-value=0.0074  Score=52.89  Aligned_cols=62  Identities=27%  Similarity=0.323  Sum_probs=40.6

Q ss_pred             ceEeeccCCCCCH--------------HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCccccccc
Q psy7187          12 GVVCIDEFDKMRE--------------DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNID   77 (214)
Q Consensus        12 Gv~~iDE~~~~~~--------------~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~   77 (214)
                      +++||||++.+..              ..++.|+..|+.+.           -+....++|++|...            .
T Consensus       125 ~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~-----------~~~~viviAatn~p~------------~  181 (499)
T 2dhr_A          125 CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE-----------KDTAIVVMAATNRPD------------I  181 (499)
T ss_dssp             CEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCC-----------SSCCCEEEECCSCGG------------G
T ss_pred             CEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccc-----------cCccEEEEEecCChh------------h
Confidence            7999999987642              23456666665332           133477888888742            1


Q ss_pred             CCCCCCC--cccEEEEecCCCC
Q psy7187          78 FMPTILS--RFDMIFIIKDEHD   97 (214)
Q Consensus        78 l~~~lld--RFDL~~~~~~~~~   97 (214)
                      |.++++.  |||..+.+. .++
T Consensus       182 LD~aLlr~gRfdr~i~i~-~Pd  202 (499)
T 2dhr_A          182 LDPALLRPGRFDRQIAID-APD  202 (499)
T ss_dssp             SCTTTSSTTSSCCEEECC-CCC
T ss_pred             cCcccccccccceEEecC-CCC
Confidence            7788887  899877663 344

>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=96.58  E-value=0.036  Score=45.83  Aligned_cols=52  Identities=25%  Similarity=0.209  Sum_probs=39.4

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      ..+|++|||++.++.+..+.|+..|++             .|..+.+|.++|-..            .+.+.+.+|+
T Consensus       119 ~~~vliiDe~~~l~~~~~~~Ll~~le~-------------~~~~~~~Il~~~~~~------------~l~~~l~sr~  170 (373)
T 1jr3_A          119 RFKVYLIDEVHMLSRHSFNALLKTLEE-------------PPEHVKFLLATTDPQ------------KLPVTILSRC  170 (373)
T ss_dssp             SSEEEEEECGGGSCHHHHHHHHHHHHS-------------CCSSEEEEEEESCGG------------GSCHHHHTTS
T ss_pred             CeEEEEEECcchhcHHHHHHHHHHHhc-------------CCCceEEEEEeCChH------------hCcHHHHhhe
Confidence            457999999999999999999999986             245566676665321            2566788887

>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=96.33  E-value=0.021  Score=47.22  Aligned_cols=137  Identities=15%  Similarity=0.053  Sum_probs=78.3

Q ss_pred             CceEeeccCCCCC----HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187          11 GGVVCIDEFDKMR----EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus        11 ~Gv~~iDE~~~~~----~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      ..|++|||++.+.    .+.+..|...+++.            -+.++.+|+++|...-         ...+...+.+||
T Consensus       129 ~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~------------~~~~~~~I~~~~~~~~---------~~~~~~~~~~r~  187 (386)
T 2qby_A          129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEV------------NKSKISFIGITNDVKF---------VDLLDPRVKSSL  187 (386)
T ss_dssp             CEEEEEETHHHHHHSSCSTHHHHHHHHHHSC------------CC--EEEEEEESCGGG---------GGGCTTHHHHTT
T ss_pred             eEEEEEcChhhhhccCcCHHHHHHhhchhhc------------CCCeEEEEEEECCCCh---------HhhhCHHHhccC
Confidence            4589999999875    45666777777543            0234667777775310         112556667777


Q ss_pred             cEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhcc-CCCCCHHHHHHHHHHHHHHhcC
Q psy7187          87 DMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRC-GPRLTHEAGEKLKNRYVLMRNG  165 (214)
Q Consensus        87 DL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~-~p~ls~ea~~~i~~~y~~~r~~  165 (214)
                      ....+...+.+.+.-..    ++....                          .... ...+++++.+++.++...  . 
T Consensus       188 ~~~~i~l~~l~~~~~~~----il~~~~--------------------------~~~~~~~~~~~~~~~~l~~~~~~--~-  234 (386)
T 2qby_A          188 SEEEIIFPPYNAEELED----ILTKRA--------------------------QMAFKPGVLPDNVIKLCAALAAR--E-  234 (386)
T ss_dssp             TTEEEEECCCCHHHHHH----HHHHHH--------------------------HHHBCSSCSCHHHHHHHHHHHHH--T-
T ss_pred             CCeeEEeCCCCHHHHHH----HHHHHH--------------------------HhhccCCCCCHHHHHHHHHHHHH--h-
Confidence            53222223333221111    111111                          0001 124677777777665421  0 


Q ss_pred             CCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         166 SKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       166 ~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                                 .=.+|.+..+++.+...|...++..|+.+|+..|+.
T Consensus       235 -----------~G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~  270 (386)
T 2qby_A          235 -----------HGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKE  270 (386)
T ss_dssp             -----------TCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             -----------cCCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence                       014777777888888888888888999999998864

>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=96.30  E-value=0.019  Score=47.39  Aligned_cols=58  Identities=21%  Similarity=0.296  Sum_probs=43.8

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +...|++|||++.|+.+.+++|+..||+.             |..+.++.++|+..            .+.+++.+|+. 
T Consensus       109 ~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~il~~n~~~------------~i~~~i~sR~~-  162 (340)
T 1sxj_C          109 KGFKLIILDEADAMTNAAQNALRRVIERY-------------TKNTRFCVLANYAH------------KLTPALLSQCT-  162 (340)
T ss_dssp             CSCEEEEETTGGGSCHHHHHHHHHHHHHT-------------TTTEEEEEEESCGG------------GSCHHHHTTSE-
T ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHhcC-------------CCCeEEEEEecCcc------------ccchhHHhhce-
Confidence            35789999999999999999999999974             23455666677642            27788999985 


Q ss_pred             EEEe
Q psy7187          89 IFII   92 (214)
Q Consensus        89 ~~~~   92 (214)
                      .+.+
T Consensus       163 ~~~~  166 (340)
T 1sxj_C          163 RFRF  166 (340)
T ss_dssp             EEEC
T ss_pred             eEec
Confidence            4443

>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=96.28  E-value=0.008  Score=49.20  Aligned_cols=66  Identities=11%  Similarity=0.157  Sum_probs=39.8

Q ss_pred             cCCceEeeccCCCCCH--HHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcc
Q psy7187           9 ADGGVVCIDEFDKMRE--DDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRF   86 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~--~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRF   86 (214)
                      .+.+|++|||++.++.  ..++.++..++...    ..|       ...|+++.||..         +...+.+.|++||
T Consensus        97 ~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~----~~~-------~~iii~~~~~~~---------~l~~l~~~L~sR~  156 (324)
T 1l8q_A           97 KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLY----LLE-------KQIILASDRHPQ---------KLDGVSDRLVSRF  156 (324)
T ss_dssp             HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHH----HTT-------CEEEEEESSCGG---------GCTTSCHHHHHHH
T ss_pred             cCCCEEEEcCcccccCChHHHHHHHHHHHHHH----HCC-------CeEEEEecCChH---------HHHHhhhHhhhcc
Confidence            3578999999999886  55666666654210    011       134455555532         1113778899999


Q ss_pred             c--EEEEecC
Q psy7187          87 D--MIFIIKD   94 (214)
Q Consensus        87 D--L~~~~~~   94 (214)
                      +  +++.+..
T Consensus       157 ~~~~~i~l~~  166 (324)
T 1l8q_A          157 EGGILVEIEL  166 (324)
T ss_dssp             HTSEEEECCC
T ss_pred             cCceEEEeCC
Confidence            7  6665543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.26  E-value=0.04  Score=47.68  Aligned_cols=36  Identities=17%  Similarity=0.096  Sum_probs=28.7

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ++|.+.+..+++-|.-.|--+.+..|+.+|+..|+.
T Consensus       413 GfSGADI~~l~~eAa~~Air~~~~~it~~Df~~Al~  448 (467)
T 4b4t_H          413 NSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVD  448 (467)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            457777888888777777777888999999998874

>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=96.22  E-value=0.011  Score=46.63  Aligned_cols=35  Identities=17%  Similarity=0.054  Sum_probs=30.4

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      +.+.|.++.+++-|...|..+.+..|+.+|+.+|+
T Consensus       219 G~~~~dl~~~~~~a~~~a~~~~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          219 GFVGADLENLLNEAALLAAREGRRKITMKDLEEAA  253 (254)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHh
Confidence            45778899999988888888888899999999986

>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=96.21  E-value=0.036  Score=51.63  Aligned_cols=122  Identities=14%  Similarity=0.144  Sum_probs=68.5

Q ss_pred             CceEeeccCCCCC--------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187          11 GGVVCIDEFDKMR--------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus        11 ~Gv~~iDE~~~~~--------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      ..|+||||++.+.        .+..+.|...|+.+               ++.+|+++|+...        ..+.+.++|
T Consensus       264 ~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~---------------~i~~I~at~~~~~--------~~~~~d~aL  320 (854)
T 1qvr_A          264 EVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG---------------ELRLIGATTLDEY--------REIEKDPAL  320 (854)
T ss_dssp             SEEEEECCC-------------------HHHHHTT---------------CCCEEEEECHHHH--------HHHTTCTTT
T ss_pred             CeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC---------------CeEEEEecCchHH--------hhhccCHHH
Confidence            3599999999987        45556778888764               3557888887421        014478999


Q ss_pred             CCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCC-CCCHHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGP-RLTHEAGEKLKNRYVL  161 (214)
Q Consensus        83 ldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p-~ls~ea~~~i~~~y~~  161 (214)
                      .+||+. +.+ +.++.+....+.+.++......       ..-.++.+.+.....+++.++.. .+++.+.+++......
T Consensus       321 ~rRf~~-i~l-~~p~~~e~~~iL~~~~~~~~~~-------~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~a~  391 (854)
T 1qvr_A          321 ERRFQP-VYV-DEPTVEETISILRGLKEKYEVH-------HGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAAR  391 (854)
T ss_dssp             CSCCCC-EEE-CCCCHHHHHHHHHHHHHHHHHH-------TTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHH
T ss_pred             HhCCce-EEe-CCCCHHHHHHHHHhhhhhhhhh-------cCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHHHH
Confidence            999996 444 4445444445544444433221       22345677777777877776543 3456777777776655


Q ss_pred             Hhc
Q psy7187         162 MRN  164 (214)
Q Consensus       162 ~r~  164 (214)
                      .+.
T Consensus       392 ~~~  394 (854)
T 1qvr_A          392 LRM  394 (854)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            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=96.14  E-value=0.045  Score=44.13  Aligned_cols=53  Identities=21%  Similarity=0.253  Sum_probs=41.2

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      ...|++|||++.++.+..+.|+..|++.             |..+.+|.++|+..            .+.+++.+|+.
T Consensus       107 ~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~il~~~~~~------------~l~~~l~sr~~  159 (323)
T 1sxj_B          107 KHKIVILDEADSMTAGAQQALRRTMELY-------------SNSTRFAFACNQSN------------KIIEPLQSQCA  159 (323)
T ss_dssp             CCEEEEEESGGGSCHHHHHTTHHHHHHT-------------TTTEEEEEEESCGG------------GSCHHHHTTSE
T ss_pred             CceEEEEECcccCCHHHHHHHHHHHhcc-------------CCCceEEEEeCChh------------hchhHHHhhce
Confidence            3679999999999999999999999863             34566777776632            26778889986

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.04  E-value=0.035  Score=50.94  Aligned_cols=119  Identities=11%  Similarity=0.067  Sum_probs=68.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +.++|+|||    ...+..+.|+.+|+.|               .+.+|+|+|+..-       ...+.+.++|.+||..
T Consensus       266 ~~~~iLfiD----~~~~~~~~L~~~l~~~---------------~v~~I~at~~~~~-------~~~~~~d~al~rRf~~  319 (758)
T 3pxi_A          266 AGNIILFID----AAIDASNILKPSLARG---------------ELQCIGATTLDEY-------RKYIEKDAALERRFQP  319 (758)
T ss_dssp             CCCCEEEEC----C--------CCCTTSS---------------SCEEEEECCTTTT-------HHHHTTCSHHHHSEEE
T ss_pred             cCCEEEEEc----CchhHHHHHHHHHhcC---------------CEEEEeCCChHHH-------HHHhhccHHHHhhCcE
Confidence            567899999    4556777888888855               3678999999631       1223588999999953


Q ss_pred             EEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHHHH
Q psy7187          89 IFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYVLM  162 (214)
Q Consensus        89 ~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~~~  162 (214)
                       +.+ +.++.+....    |+........   ......++.+.+.....++..++. ..+++.+.+++.......
T Consensus       320 -i~v-~~p~~~~~~~----il~~~~~~~~---~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~~~  385 (758)
T 3pxi_A          320 -IQV-DQPSVDESIQ----ILQGLRDRYE---AHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKV  385 (758)
T ss_dssp             -EEC-CCCCHHHHHH----HHHHTTTTSG---GGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHH
T ss_pred             -EEe-CCCCHHHHHH----HHHHHHHHHH---HhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHHHH
Confidence             444 4444433333    3332211110   122345777888888888877654 345677788877665433

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.96  E-value=0.0094  Score=47.77  Aligned_cols=36  Identities=17%  Similarity=0.051  Sum_probs=30.9

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.+.|.++.+++-|...|..+.+..|+.+|+.+|+.
T Consensus       243 G~~~~dl~~l~~~a~~~a~~~~~~~I~~~dl~~a~~  278 (278)
T 1iy2_A          243 GFVGADLENLLNEAALLAAREGRRKITMKDLEEAAS  278 (278)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCCSBCHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHhC
Confidence            457788999999888888888888999999999863

>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=95.64  E-value=0.011  Score=47.08  Aligned_cols=63  Identities=8%  Similarity=0.151  Sum_probs=41.8

Q ss_pred             cCCceEeeccCCCC----------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187           9 ADGGVVCIDEFDKM----------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus         9 a~~Gv~~iDE~~~~----------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      +.++|++|||++.+          ....++.|.+.|+...          ..+.++.|++|+|+...            +
T Consensus       123 ~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~----------~~~~~~~ii~ttn~~~~------------l  180 (272)
T 1d2n_A          123 SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP----------PQGRKLLIIGTTSRKDV------------L  180 (272)
T ss_dssp             SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC----------STTCEEEEEEEESCHHH------------H
T ss_pred             cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCcc----------CCCCCEEEEEecCChhh------------c
Confidence            45799999999886          5556666666665310          11345778999988421            3


Q ss_pred             CC-CCCCcccEEEEec
Q psy7187          79 MP-TILSRFDMIFIIK   93 (214)
Q Consensus        79 ~~-~lldRFDL~~~~~   93 (214)
                      .. .+.+||+..+.+.
T Consensus       181 ~~~~l~~rf~~~i~~p  196 (272)
T 1d2n_A          181 QEMEMLNAFSTTIHVP  196 (272)
T ss_dssp             HHTTCTTTSSEEEECC
T ss_pred             chhhhhcccceEEcCC
Confidence            33 6789999887663

>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=94.20  E-value=0.041  Score=44.60  Aligned_cols=65  Identities=25%  Similarity=0.278  Sum_probs=44.3

Q ss_pred             CceEeeccCCCCCHH--------------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMRED--------------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~--------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      .+|+||||++.+...              .+..|+..|+.-.           -+.+..||||+|....           
T Consensus       109 p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~-----------~~~~v~vi~atn~~~~-----------  166 (301)
T 3cf0_A          109 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS-----------TKKNVFIIGATNRPDI-----------  166 (301)
T ss_dssp             SEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC-----------TTSSEEEEEEESCGGG-----------
T ss_pred             CeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc-----------CCCCEEEEEecCCccc-----------
Confidence            489999999975432              4577888887311           1346889999998522           


Q ss_pred             cCCCCCCC--cccEEEEecCCCCcc
Q psy7187          77 DFMPTILS--RFDMIFIIKDEHDET   99 (214)
Q Consensus        77 ~l~~~lld--RFDL~~~~~~~~~~~   99 (214)
                       +.++++.  |||..+.+.. ++..
T Consensus       167 -ld~al~r~gRf~~~i~i~~-p~~~  189 (301)
T 3cf0_A          167 -IDPAILRPGRLDQLIYIPL-PDEK  189 (301)
T ss_dssp             -SCGGGGSTTSSCEEEECCC-CCHH
T ss_pred             -cChHHhcCCccceEEecCC-cCHH
Confidence             6777887  9997776643 4443

>3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_T* 3vh5_T 3vh6_T

Probab=92.59  E-value=0.64  Score=32.01  Aligned_cols=65  Identities=12%  Similarity=0.046  Sum_probs=46.5

Q ss_pred             CCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcH
Q psy7187         125 GELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAID  204 (214)
Q Consensus       125 ~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~  204 (214)
                      ..++...+++....+-   ...+|+++...+.+....                    .++.+.+-|.+.|+=.+|++|+.
T Consensus         6 ~~lP~a~I~Ri~r~~g---~~rIS~~a~~~l~e~l~~--------------------f~~~v~~da~~~A~HA~RKTV~~   62 (111)
T 3b0c_T            6 PEIASSLIKQIFSHYV---KTPVTRDAYKIVEKCSER--------------------YFKQISSDLEAYSQHAGRKTVEM   62 (111)
T ss_dssp             ----CHHHHHHHHHHH---CSCBCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECH
T ss_pred             CCCCHHHHHHHHHHCC---CCccCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCcCCH
Confidence            3566667776554332   346898888887765432                    36788999999999999999999


Q ss_pred             HHHHHHHh
Q psy7187         205 SHVTEALR  212 (214)
Q Consensus       205 ~Dv~~Ai~  212 (214)
                      +||..|++
T Consensus        63 eDV~lalr   70 (111)
T 3b0c_T           63 ADVELLMR   70 (111)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999875

>3b0c_W CENP-W, centromere protein W; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_W* 3vh5_W 3vh6_W

Probab=92.43  E-value=0.59  Score=29.79  Aligned_cols=66  Identities=18%  Similarity=0.204  Sum_probs=49.1

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.-+--  ...++++|...+...+...                    ++.|..-|..+|+-..|.+|+.+
T Consensus         4 ~LP~A~V~rI~K~~~p--~~~is~~A~~~i~~~~~~F--------------------i~~la~eA~~~a~~~~rKTI~~~   61 (76)
T 3b0c_W            4 TVPRGTLRKIIKKHKP--HLRLAANTDLLVHLSFLLF--------------------LHRLAEEARTNAFENKSKIIKPE   61 (76)
T ss_dssp             CCCHHHHHHHHHHHCT--TCEECTTHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTCSSBCHH
T ss_pred             cccccHHHHHHHHhCC--CCccCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCCCCHH
Confidence            5677777777653321  1247889998888877542                    45667777889999999999999


Q ss_pred             HHHHHHhc
Q psy7187         206 HVTEALRL  213 (214)
Q Consensus       206 Dv~~Ai~l  213 (214)
                      ||..|++.
T Consensus        62 dI~~A~~~   69 (76)
T 3b0c_W           62 HTIAAAKV   69 (76)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999864

>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2

Probab=92.39  E-value=0.79  Score=28.61  Aligned_cols=64  Identities=17%  Similarity=0.205  Sum_probs=47.1

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.-+-   .-.+++++...+.+.-.                    +.++.+++-|...|.=.+|.+|+.+
T Consensus         6 ~lp~a~v~Rl~r~~g---~~ris~~a~~~l~e~~~--------------------~~~~~v~~dA~~~a~hakRkTI~~~   62 (70)
T 1ku5_A            6 ELPIAPVDRLIRKAG---AERVSEQAAKVLAEYLE--------------------EYAIEIAKKAVEFARHAGRKTVKVE   62 (70)
T ss_dssp             CSCHHHHHHHHHHTT---CSEECHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTTCSEECHH
T ss_pred             cCChHHHHHHHHHcC---cceeCHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHcCCCcCCHH
Confidence            456666666654331   23578888777766542                    3367889999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|++
T Consensus        63 DV~lA~~   69 (70)
T 1ku5_A           63 DIKLAIK   69 (70)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            9999975

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=92.20  E-value=0.026  Score=41.53  Aligned_cols=54  Identities=20%  Similarity=0.199  Sum_probs=36.8

Q ss_pred             ceEeeccCCCCC--------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187          12 GVVCIDEFDKMR--------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus        12 Gv~~iDE~~~~~--------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      .|++|||++.+.        ......|...++.+               ++.+|+++|+...       .....+.++++
T Consensus       117 ~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~---------------~~~~i~~~~~~~~-------~~~~~~~~~l~  174 (195)
T 1jbk_A          117 VILFIDELHTMVGAGKADGAMDAGNMLKPALARG---------------ELHCVGATTLDEY-------RQYIEKDAALE  174 (195)
T ss_dssp             EEEEEETGGGGTT------CCCCHHHHHHHHHTT---------------SCCEEEEECHHHH-------HHHTTTCHHHH
T ss_pred             eEEEEeCHHHHhccCcccchHHHHHHHHHhhccC---------------CeEEEEeCCHHHH-------HHHHhcCHHHH
Confidence            389999999985        34466777777643               4667788776410       01124778999


Q ss_pred             Cccc
Q psy7187          84 SRFD   87 (214)
Q Consensus        84 dRFD   87 (214)
                      +||+
T Consensus       175 ~r~~  178 (195)
T 1jbk_A          175 RRFQ  178 (195)
T ss_dssp             TTEE
T ss_pred             HHhc
Confidence            9998

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=92.16  E-value=0.029  Score=41.22  Aligned_cols=56  Identities=18%  Similarity=0.144  Sum_probs=39.2

Q ss_pred             CceEeeccCCCCC---------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187          11 GGVVCIDEFDKMR---------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus        11 ~Gv~~iDE~~~~~---------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      +.|++|||++.+.         .+..+.|...++.+               ++.+|+++|+...       .....+.++
T Consensus       116 ~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~~---------------~~~ii~~~~~~~~-------~~~~~~~~~  173 (187)
T 2p65_A          116 QVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLARG---------------ELRCIGATTVSEY-------RQFIEKDKA  173 (187)
T ss_dssp             SEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHTT---------------CSCEEEEECHHHH-------HHHTTTCHH
T ss_pred             ceEEEEeCHHHhcccccccccchHHHHHHHHHHhcC---------------CeeEEEecCHHHH-------HHHHhccHH
Confidence            3599999999986         55667777777642               4678888887421       011247789


Q ss_pred             CCCcccE
Q psy7187          82 ILSRFDM   88 (214)
Q Consensus        82 lldRFDL   88 (214)
                      +++||+.
T Consensus       174 l~~R~~~  180 (187)
T 2p65_A          174 LERRFQQ  180 (187)
T ss_dssp             HHHHEEE
T ss_pred             HHHhcCc
Confidence            9999985

>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=92.02  E-value=0.41  Score=39.12  Aligned_cols=58  Identities=17%  Similarity=0.284  Sum_probs=41.8

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      +..|++|||.+.++....+.|+..|++.             |..+.+|.++|-..            .+.+++.+|+ ..
T Consensus       134 ~~~vlilDE~~~L~~~~~~~L~~~le~~-------------~~~~~~Il~t~~~~------------~l~~~l~sR~-~~  187 (354)
T 1sxj_E          134 RYKCVIINEANSLTKDAQAALRRTMEKY-------------SKNIRLIMVCDSMS------------PIIAPIKSQC-LL  187 (354)
T ss_dssp             CCEEEEEECTTSSCHHHHHHHHHHHHHS-------------TTTEEEEEEESCSC------------SSCHHHHTTS-EE
T ss_pred             CCeEEEEeCccccCHHHHHHHHHHHHhh-------------cCCCEEEEEeCCHH------------HHHHHHHhhc-eE
Confidence            4569999999999999999999999863             22345555555321            2677899999 55


Q ss_pred             EEec
Q psy7187          90 FIIK   93 (214)
Q Consensus        90 ~~~~   93 (214)
                      +.+.
T Consensus       188 ~~~~  191 (354)
T 1sxj_E          188 IRCP  191 (354)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            5443

>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=91.73  E-value=0.11  Score=42.35  Aligned_cols=51  Identities=24%  Similarity=0.283  Sum_probs=39.0

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCc-eEEEEeecCCCCCCCCCcccccccCCCCCCCc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR-CSVLAAANSVFGRWDDTKGEQNIDFMPTILSR   85 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~-~~viaa~Np~~g~~~~~~~~~~~~l~~~lldR   85 (214)
                      +...|++|||++.|+.+..++|+..||+.             |.. ..|++|.||.             ++.+++.||
T Consensus        81 ~~~kvviIdead~lt~~a~naLLk~LEep-------------~~~t~fIl~t~~~~-------------kl~~tI~SR  132 (305)
T 2gno_A           81 YTRKYVIVHDCERMTQQAANAFLKALEEP-------------PEYAVIVLNTRRWH-------------YLLPTIKSR  132 (305)
T ss_dssp             SSSEEEEETTGGGBCHHHHHHTHHHHHSC-------------CTTEEEEEEESCGG-------------GSCHHHHTT
T ss_pred             CCceEEEeccHHHhCHHHHHHHHHHHhCC-------------CCCeEEEEEECChH-------------hChHHHHce
Confidence            45689999999999999999999999973             223 3344444552             388999999

>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2

Probab=91.06  E-value=2.8  Score=30.52  Aligned_cols=65  Identities=11%  Similarity=0.036  Sum_probs=52.2

Q ss_pred             CCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcH
Q psy7187         125 GELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAID  204 (214)
Q Consensus       125 ~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~  204 (214)
                      -.+|...+.+.+.-+-   .-.+|.++...+.+.....                    ++.+.+.|-..|.-.+|.+|+.
T Consensus        81 l~lP~a~V~Ri~k~~g---~~RVS~~A~~~l~~~le~f--------------------~~~I~~~A~~~a~ha~RKTIt~  137 (154)
T 1f1e_A           81 ELFGRATVRRILKRAG---IERASSDAVDLYNKLICRA--------------------TEELGEKAAEYADEDGRKTVQG  137 (154)
T ss_dssp             CCCCHHHHHHHHHHTT---CCEECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSEECH
T ss_pred             ccCCccHHHHHHHHcC---CccchHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCccCH
Confidence            3678888888876662   2368999988887765431                    5688999999999999999999


Q ss_pred             HHHHHHHh
Q psy7187         205 SHVTEALR  212 (214)
Q Consensus       205 ~Dv~~Ai~  212 (214)
                      +||..|++
T Consensus       138 eDV~~Al~  145 (154)
T 1f1e_A          138 EDVEKAIT  145 (154)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999975

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=91.03  E-value=0.2  Score=41.13  Aligned_cols=58  Identities=14%  Similarity=0.225  Sum_probs=41.9

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +...|++|||++.|+.+..++|+..||+.             |..+.+|.++|-. .           ++.+.+.||+- 
T Consensus       107 ~~~kvviIdead~l~~~a~naLLk~lEep-------------~~~~~~Il~t~~~-~-----------~l~~ti~SRc~-  160 (334)
T 1a5t_A          107 GGAKVVWVTDAALLTDAAANALLKTLEEP-------------PAETWFFLATREP-E-----------RLLATLRSRCR-  160 (334)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSC-------------CTTEEEEEEESCG-G-----------GSCHHHHTTSE-
T ss_pred             CCcEEEEECchhhcCHHHHHHHHHHhcCC-------------CCCeEEEEEeCCh-H-----------hCcHHHhhcce-
Confidence            45689999999999999999999999963             3344444444321 1           37889999984 


Q ss_pred             EEEe
Q psy7187          89 IFII   92 (214)
Q Consensus        89 ~~~~   92 (214)
                      .+.+
T Consensus       161 ~~~~  164 (334)
T 1a5t_A          161 LHYL  164 (334)
T ss_dssp             EEEC
T ss_pred             eeeC
Confidence            4444

>4g92_C HAPE; transcription factor, nucleosome, minor groove binding, CCAA complex, histone fold motif, specific binding to the ccaat- nucleus; HET: DNA; 1.80A {Aspergillus nidulans} PDB: 4g91_C*

Probab=90.88  E-value=2.9  Score=29.01  Aligned_cols=68  Identities=18%  Similarity=0.073  Sum_probs=50.9

Q ss_pred             CCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCC
Q psy7187         123 SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFA  202 (214)
Q Consensus       123 ~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V  202 (214)
                      ....+|...+++++..-..  ...++.+|.-++.......                    +..|...|..+|+-+.|.+|
T Consensus        38 k~~~lPvaRIkrImK~d~~--~~~is~eA~v~la~a~E~F--------------------i~~L~~~A~~~a~~~krktI   95 (119)
T 4g92_C           38 KIHQLPLARIKKVMKADPE--VKMISAEAPILFAKGCDVF--------------------ITELTMRAWIHAEDNKRRTL   95 (119)
T ss_dssp             SCCSSCHHHHHHHHHTSTT--CCEECTHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSEE
T ss_pred             ccCCCCHHHHHHHHhhCCc--cccccHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHhcccCcc
Confidence            4567899999999863222  1256778877776654321                    45788899999999999999


Q ss_pred             cHHHHHHHHh
Q psy7187         203 IDSHVTEALR  212 (214)
Q Consensus       203 ~~~Dv~~Ai~  212 (214)
                      +.+|+..|++
T Consensus        96 ~~~di~~Av~  105 (119)
T 4g92_C           96 QRSDIAAALS  105 (119)
T ss_dssp             CHHHHHHHHT
T ss_pred             CHHHHHHHHh
Confidence            9999999985

>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=90.41  E-value=2.6  Score=36.61  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             cCCceEeeccCCCCCHHHH---HHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDKMREDDR---VAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~---~~L~e~me~   36 (214)
                      ..++|++|||++.+....+   ..|...++.
T Consensus       147 ~~~~vliIDEid~l~~~~~~~l~~L~~~l~~  177 (516)
T 1sxj_A          147 GKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK  177 (516)
T ss_dssp             TTSEEEEECSGGGCCTTSTTHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCccchhhHHHHHHHHHHHHh
Confidence            4568999999999977544   678887775

>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=90.40  E-value=1.2  Score=27.79  Aligned_cols=33  Identities=18%  Similarity=0.041  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         181 RQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       181 R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      |....+++=|...|+=.+|++|+.+||+.|+..
T Consensus        33 ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~   65 (68)
T 1taf_A           33 RYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence            445678888899999999999999999999863

>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140}

Probab=90.30  E-value=0.84  Score=30.93  Aligned_cols=64  Identities=17%  Similarity=0.177  Sum_probs=46.8

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      -++...++++..-+-   ...+++++...+......                    -++.+++.|...|+-..|.+|+.+
T Consensus        29 gip~~~I~Rlar~~G---~~rIs~~a~~~l~~vle~--------------------~~~~V~~dA~~~a~hakRktvt~~   85 (103)
T 2yfw_B           29 GITKPAIRRLARRGG---VKRISGLIYEEVRNVLKT--------------------FLESVIRDAVTYTEHAKRKTVTSL   85 (103)
T ss_dssp             -CCHHHHHHHHHHTT---CCEECTTHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHH
T ss_pred             cCCHHHHHHHHHHcC---ccccCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCcCcHH
Confidence            378777777654221   135777777777554432                    156789999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|++
T Consensus        86 DV~~Alr   92 (103)
T 2yfw_B           86 DVVYALK   92 (103)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999975

>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A

Probab=89.71  E-value=2.4  Score=26.13  Aligned_cols=65  Identities=20%  Similarity=0.161  Sum_probs=47.2

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.-+ .  ...++.++...+.+....                    -++.|..-|..+|.-..|.+|+.+
T Consensus         2 ~lP~a~v~Ri~k~~-~--~~ris~~A~~~l~~a~e~--------------------fi~~l~~~A~~~a~~~kRkTI~~~   58 (68)
T 1b67_A            2 ELPIAPIGRIIKNA-G--AERVSDDARIALAKVLEE--------------------MGEEIASEAVKLAKHAGRKTIKAE   58 (68)
T ss_dssp             CSCHHHHHHHHHHT-T--CSEECHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHH
T ss_pred             CCCccHHHHHHhcC-C--cccCCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCccCHH
Confidence            45666666665544 2  235788888877765533                    155677888889999999999999


Q ss_pred             HHHHHHhc
Q psy7187         206 HVTEALRL  213 (214)
Q Consensus       206 Dv~~Ai~l  213 (214)
                      ||..|++.
T Consensus        59 Di~~A~~~   66 (68)
T 1b67_A           59 DIELARKM   66 (68)
T ss_dssp             HHHHHGGG
T ss_pred             HHHHHHHh
Confidence            99999864

>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ...

Probab=88.96  E-value=0.66  Score=31.45  Aligned_cols=63  Identities=16%  Similarity=0.159  Sum_probs=46.7

Q ss_pred             CChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHH
Q psy7187         127 LPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSH  206 (214)
Q Consensus       127 l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~D  206 (214)
                      ++...++++..-+-   ...+++++...+......                    -++.+++.|...|+-..|.+|+.+|
T Consensus        30 ip~~~I~Rlar~~G---~~rIs~~a~~~l~~vle~--------------------~~~~V~~dA~~~a~hakRktIt~~D   86 (103)
T 1tzy_D           30 ITKPAIRRLARRGG---VKRISGLIYEETRGVLKV--------------------FLENVIRDAVTYTEHAKRKTVTAMD   86 (103)
T ss_dssp             SCHHHHHHHHHHTT---CCEECTTHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHHH
T ss_pred             CCHHHHHHHHHHcC---ccccCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCcCCHHH
Confidence            77777777643221   125777777777654432                    1567899999999999999999999


Q ss_pred             HHHHHh
Q psy7187         207 VTEALR  212 (214)
Q Consensus       207 v~~Ai~  212 (214)
                      |..|++
T Consensus        87 V~~Alr   92 (103)
T 1tzy_D           87 VVYALK   92 (103)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999986

>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3

Probab=88.62  E-value=3.3  Score=26.35  Aligned_cols=62  Identities=21%  Similarity=0.188  Sum_probs=46.1

Q ss_pred             CCChHHHHHHHHHhHhccCC--CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCc
Q psy7187         126 ELPLPVLKKYINYCRMRCGP--RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAI  203 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p--~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~  203 (214)
                      .++...|..++   ++ +.|  .+++++.+.+.+.+-..                    +++.+..|...||.+.++.+.
T Consensus         5 vl~k~~L~~Lv---~~-idp~~~ld~~vee~ll~lADdF--------------------V~~V~~~ac~lAKhR~s~~le   60 (76)
T 1h3o_B            5 VLTKKKLQDLV---RE-VDPNEQLDEDVEEMLLQIADDF--------------------IESVVTAACQLARHRKSSTLE   60 (76)
T ss_dssp             SSCHHHHHHHH---HH-HCSSCCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCCEEC
T ss_pred             cccHHHHHHHH---Hh-cCCCCCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHhcCCCCcc
Confidence            34555555444   33 344  67899999998877542                    678889999999999999999


Q ss_pred             HHHHHHHH
Q psy7187         204 DSHVTEAL  211 (214)
Q Consensus       204 ~~Dv~~Ai  211 (214)
                      ..|+.-.+
T Consensus        61 ~kDvql~L   68 (76)
T 1h3o_B           61 VKDVQLHL   68 (76)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99997654

>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3

Probab=86.86  E-value=2.5  Score=28.16  Aligned_cols=68  Identities=15%  Similarity=0.078  Sum_probs=48.5

Q ss_pred             CCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCC
Q psy7187         123 SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFA  202 (214)
Q Consensus       123 ~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V  202 (214)
                      ....+|...+++.+.....  ...++.++.-++...-...                    +..|...|..+|+-..|.+|
T Consensus        16 ~~~~lP~arIkrImK~~~~--~~~is~eA~~~laka~E~F--------------------i~~l~~~A~~~a~~~krktI   73 (97)
T 1n1j_B           16 RVQELPLARIKKIMKLDED--VKMISAEAPVLFAKAAQIF--------------------ITELTLRAWIHTEDNKRRTL   73 (97)
T ss_dssp             ----CCHHHHHHHHTTSTT--CCCBCTHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSEE
T ss_pred             CCCcCCHHHHHHHHccCcc--ccccChHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCccC
Confidence            3456788888888764432  1257888877776554321                    45778889999999999999


Q ss_pred             cHHHHHHHHh
Q psy7187         203 IDSHVTEALR  212 (214)
Q Consensus       203 ~~~Dv~~Ai~  212 (214)
                      +.+|+..|++
T Consensus        74 ~~~di~~Av~   83 (97)
T 1n1j_B           74 QRNDIAMAIT   83 (97)
T ss_dssp             CHHHHHHHHT
T ss_pred             CHHHHHHHHh
Confidence            9999999975

>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=86.20  E-value=4.5  Score=25.29  Aligned_cols=67  Identities=13%  Similarity=0.149  Sum_probs=49.2

Q ss_pred             CCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCc
Q psy7187         124 DGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAI  203 (214)
Q Consensus       124 ~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~  203 (214)
                      ...|+.+.++.+..-+-   -+.+++++...|..-...                   | +.-+++=|--+++-.+|++++
T Consensus         4 ~s~lp~~~v~~iaes~G---i~~lsddaa~~LA~dvEy-------------------r-~~eI~qeA~kfmrHakRk~Lt   60 (70)
T 1taf_B            4 GSSISAESMKVIAESIG---VGSLSDDAAKELAEDVSI-------------------K-LKRIVQDAAKFMNHAKRQKLS   60 (70)
T ss_dssp             SCCCCHHHHHHHHHHTT---CCCBCHHHHHHHHHHHHH-------------------H-HHHHHHHHHHHHHHTTCSSBC
T ss_pred             cccCCHHHHHHHHHHCC---CCCCCHHHHHHHHHHHHH-------------------H-HHHHHHHHHHHHHHcCCCeec
Confidence            35678888887755432   247999998888765422                   1 345677788888899999999


Q ss_pred             HHHHHHHHhc
Q psy7187         204 DSHVTEALRL  213 (214)
Q Consensus       204 ~~Dv~~Ai~l  213 (214)
                      .+||..|+++
T Consensus        61 ~~DI~~Alk~   70 (70)
T 1taf_B           61 VRDIDMSLKV   70 (70)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHcC
Confidence            9999999864

>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=85.28  E-value=4.8  Score=33.17  Aligned_cols=33  Identities=18%  Similarity=0.158  Sum_probs=24.2

Q ss_pred             CHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         179 TVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       179 s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      .+|.+..+++.+...|....+..|+.+|+..|+
T Consensus       258 ~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~  290 (412)
T 1w5s_A          258 SARRAIVALKMACEMAEAMGRDSLSEDLVRKAV  290 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence            367777777777777777777788888887665

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=85.28  E-value=0.45  Score=39.06  Aligned_cols=77  Identities=8%  Similarity=-0.006  Sum_probs=46.2

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      ..|+++||++.+.  .++.|+.-++-..          .-.++..||+.+|-..-.        ...|++.+.|||+...
T Consensus       133 ~~ii~lDE~d~l~--~q~~L~~l~~~~~----------~~~s~~~vI~i~n~~d~~--------~~~L~~~v~SR~~~~~  192 (318)
T 3te6_A          133 KTLILIQNPENLL--SEKILQYFEKWIS----------SKNSKLSIICVGGHNVTI--------REQINIMPSLKAHFTE  192 (318)
T ss_dssp             EEEEEEECCSSSC--CTHHHHHHHHHHH----------CSSCCEEEEEECCSSCCC--------HHHHHTCHHHHTTEEE
T ss_pred             ceEEEEecHHHhh--cchHHHHHHhccc----------ccCCcEEEEEEecCcccc--------hhhcchhhhccCCceE
Confidence            3589999999987  3445555443100          013468889988875211        1126778899998755


Q ss_pred             EecCCCCccccHHHHHH
Q psy7187          91 IIKDEHDETRDITLAKH  107 (214)
Q Consensus        91 ~~~~~~~~~~d~~ia~~  107 (214)
                      +.+.+.+.+.-..|.++
T Consensus       193 i~F~pYt~~el~~Il~~  209 (318)
T 3te6_A          193 IKLNKVDKNELQQMIIT  209 (318)
T ss_dssp             EECCCCCHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHH
Confidence            55655555444444333

>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3

Probab=85.18  E-value=6.1  Score=25.92  Aligned_cols=67  Identities=12%  Similarity=0.110  Sum_probs=48.8

Q ss_pred             CCCCChHHHHHHHHHh-HhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCC
Q psy7187         124 DGELPLPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFA  202 (214)
Q Consensus       124 ~~~l~~~~l~~~i~~a-r~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V  202 (214)
                      +-.+|...+++.+.-+ ..  ...++++|...+.+.....                    +..|..-|..+|.-..|.+|
T Consensus         6 d~~LP~a~i~ri~K~~~~~--~~~is~dA~~~l~~a~e~F--------------------i~~l~~~A~~~a~~~kRkTI   63 (93)
T 1n1j_A            6 DIYLPIANVARIMKNAIPQ--TGKIAKDAKECVQECVSEF--------------------ISFITSEASERCHQEKRKTI   63 (93)
T ss_dssp             -CCCCHHHHHHHHHHTSCT--TCEECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSB
T ss_pred             cccCChhHHHHHHHHhCCc--cceeCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCcc
Confidence            3467777788776543 11  1257889888887765431                    55677788889999999999


Q ss_pred             cHHHHHHHHh
Q psy7187         203 IDSHVTEALR  212 (214)
Q Consensus       203 ~~~Dv~~Ai~  212 (214)
                      +.+||..|++
T Consensus        64 ~~~Dv~~Al~   73 (93)
T 1n1j_A           64 NGEDILFAMS   73 (93)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999975

>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1

Probab=84.93  E-value=3.5  Score=27.79  Aligned_cols=64  Identities=14%  Similarity=0.146  Sum_probs=46.6

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .++...+++...   +--...+|+++.+.+......                    -++.+++=|.+.|.=..|.+|+.+
T Consensus        28 ~ip~~~I~Rlar---~~Gv~rIS~da~~~l~~~le~--------------------fi~~I~~dA~~~a~HakRKTVt~~   84 (102)
T 1id3_B           28 GITKPAIRRLAR---RGGVKRISGLIYEEVRAVLKS--------------------FLESVIRDSVTYTEHAKRKTVTSL   84 (102)
T ss_dssp             GSCHHHHHHHHH---HTTCCEECTTHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHH
T ss_pred             CCCHHHHHHHHH---HcCchhccHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCcCcHH
Confidence            477777777643   311124788777777654432                    156788999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        85 DV~~ALk   91 (102)
T 1id3_B           85 DVVYALK   91 (102)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999976

>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3

Probab=84.83  E-value=9.5  Score=28.41  Aligned_cols=68  Identities=21%  Similarity=0.215  Sum_probs=50.7

Q ss_pred             CCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCC
Q psy7187         123 SDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFA  202 (214)
Q Consensus       123 ~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V  202 (214)
                      .+-.+|...+.+.+.-+--  ...+++++...|.+.....                    +..|..-|..+|.-..|.+|
T Consensus        12 eD~~LP~A~V~RImK~alp--~~rISkDA~~al~ec~~eF--------------------I~~LtseA~e~a~~~~RKTI   69 (179)
T 1jfi_B           12 DDLTIPRAAINKMIKETLP--NVRVANDARELVVNCCTEF--------------------IHLISSEANEICNKSEKKTI   69 (179)
T ss_dssp             CCCCCCHHHHHHHHHHHST--TCCBCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSB
T ss_pred             hhhhcCHHHHHHHHHHhCC--ccccCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCcC
Confidence            4456888888877654411  1378999999998876542                    34566778888889999999


Q ss_pred             cHHHHHHHHh
Q psy7187         203 IDSHVTEALR  212 (214)
Q Consensus       203 ~~~Dv~~Ai~  212 (214)
                      +.+||..|+.
T Consensus        70 ~~eDVl~Al~   79 (179)
T 1jfi_B           70 SPEHVIQALE   79 (179)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999974

>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae}

Probab=84.50  E-value=3.6  Score=27.08  Aligned_cols=48  Identities=17%  Similarity=-0.005  Sum_probs=37.1

Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ..+|+++...|..+.                    -+..+.+.+=+.+.|+=.+|++|+.+||..|++
T Consensus        31 ~~vs~~~i~aL~e~~--------------------~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~R   78 (90)
T 3v9r_A           31 IKYTPRFINSLLELA--------------------YLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLR   78 (90)
T ss_dssp             CCCCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             ceeCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            457887777776543                    234567777888999999999999999998864

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=84.43  E-value=13  Score=29.97  Aligned_cols=28  Identities=4%  Similarity=-0.169  Sum_probs=24.6

Q ss_pred             cCCceEeeccCCC-CCHHHHHHHHHhhhc
Q psy7187           9 ADGGVVCIDEFDK-MREDDRVAIHEAMEQ   36 (214)
Q Consensus         9 a~~Gv~~iDE~~~-~~~~~~~~L~e~me~   36 (214)
                      +..-|++|||.+. ++.+..++|+..+|+
T Consensus        75 ~~~kvvii~~~~~kl~~~~~~aLl~~le~  103 (343)
T 1jr3_D           75 ASRQTLLLLLPENGPNAAINEQLLTLTGL  103 (343)
T ss_dssp             CSCEEEEEECCSSCCCTTHHHHHHHHHTT
T ss_pred             cCCeEEEEECCCCCCChHHHHHHHHHHhc
Confidence            5677999999998 998899999999985

>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*

Probab=84.40  E-value=3.9  Score=28.47  Aligned_cols=60  Identities=18%  Similarity=0.173  Sum_probs=44.1

Q ss_pred             HHHHHhHhccCCC--CCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         134 KYINYCRMRCGPR--LTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       134 ~~i~~ar~~~~p~--ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                      .||.-+-.+++|.  +|..+...+..+...                    ..+.|..=|-.+|+...+.+++..|+..|+
T Consensus        37 ~YIyKVLKQVhpd~gISskAm~ImnSfvnD--------------------iferIA~EAs~La~~nkr~TitsreIqtAv   96 (123)
T 2nqb_D           37 IYIYTVLKQVHPDTGISSKAMSIMNSFVND--------------------IFERIAAEASRLAHYNKRSTITSREIQTAV   96 (123)
T ss_dssp             HHHHHHHHHHCTTCEECHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCCEECHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCcCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhcCCCcCCHHHHHHHH
Confidence            3443333335776  788888777554422                    266777788889999999999999999999


Q ss_pred             hc
Q psy7187         212 RL  213 (214)
Q Consensus       212 ~l  213 (214)
                      +|
T Consensus        97 rL   98 (123)
T 2nqb_D           97 RL   98 (123)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ...

Probab=82.98  E-value=4.9  Score=28.12  Aligned_cols=59  Identities=17%  Similarity=0.174  Sum_probs=43.7

Q ss_pred             HHHHhHhccCCC--CCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         135 YINYCRMRCGPR--LTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       135 ~i~~ar~~~~p~--ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ||.-+-.+++|.  +|..+...+..+...                    ..+.|..=|-.+|+...+.+++..|+..|++
T Consensus        41 YIyKVLKQVhpd~gISskAm~ImnSfvnD--------------------iferIA~EAs~La~~nkr~TitsreIqtAvr  100 (126)
T 1tzy_B           41 YVYKVLKQVHPDTGISSKAMGIMNSFVND--------------------IFERIAGEASRLAHYNKRSTITSREIQTAVR  100 (126)
T ss_dssp             HHHHHHHHHCTTCEECHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCcCHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            443333335776  788888777554422                    2667777788899999999999999999998


Q ss_pred             c
Q psy7187         213 L  213 (214)
Q Consensus       213 l  213 (214)
                      |
T Consensus       101 L  101 (126)
T 1tzy_B          101 L  101 (126)
T ss_dssp             H
T ss_pred             H
Confidence            6

>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2

Probab=82.47  E-value=4.9  Score=29.25  Aligned_cols=65  Identities=17%  Similarity=0.207  Sum_probs=48.4

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+.+.+.-+--  -..+|.++...+.+.....                    ++.+.+-|-..|.=.+|++|+.+
T Consensus         4 ~LP~a~V~Riik~~lg--~~rVS~dA~~~l~~~l~~f--------------------~~~i~~~A~~~a~ha~RKTv~a~   61 (154)
T 1f1e_A            4 ELPKAAIERIFRQGIG--ERRLSQDAKDTIYDFVPTM--------------------AEYVANAAKSVLDASGKKTLMEE   61 (154)
T ss_dssp             CCCHHHHHHHHHTTST--TCEECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHTTTCSEECHH
T ss_pred             cCCccHHHHHHHhcCC--ccchhHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCcCCHH
Confidence            4566666666543300  1257999998888776542                    56789999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        62 DV~~a~~   68 (154)
T 1f1e_A           62 HLKALAD   68 (154)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999873

>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B

Probab=82.45  E-value=3  Score=26.99  Aligned_cols=65  Identities=15%  Similarity=0.145  Sum_probs=46.5

Q ss_pred             CCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcH
Q psy7187         125 GELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAID  204 (214)
Q Consensus       125 ~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~  204 (214)
                      ..++...+++...   +--...+|+++.+.+......                    -++.+++=|.+.|+=.+|.+|+.
T Consensus         9 ~~ip~~~I~Riar---~~Gv~rIs~da~~~l~~~l~~--------------------~~~~I~~dA~~~a~ha~RKTvt~   65 (84)
T 2hue_C            9 QGITKPAIRRLAR---RGGVKRISGLIYEETRGVLKV--------------------FLENVIRDAVTYTEHAKRKTVTA   65 (84)
T ss_dssp             CSSCHHHHHHHHH---HTTCCEECTTHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECH
T ss_pred             CCCCHHHHHHHHH---HcCchhccHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCcCcH
Confidence            3477777776543   311124787777777654432                    15678899999999999999999


Q ss_pred             HHHHHHHh
Q psy7187         205 SHVTEALR  212 (214)
Q Consensus       205 ~Dv~~Ai~  212 (214)
                      +||..|++
T Consensus        66 ~DV~~Alk   73 (84)
T 2hue_C           66 MDVVYALK   73 (84)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHH
Confidence            99999975

>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A

Probab=80.23  E-value=5.2  Score=27.45  Aligned_cols=48  Identities=15%  Similarity=0.086  Sum_probs=36.3

Q ss_pred             CCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         145 PRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       145 p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ..+|+++...|..+.                    -+..+.+.+=+.+.|+=.+|++|+.+||..|++
T Consensus        46 ~~vS~~ai~aL~El~--------------------~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~R   93 (113)
T 4dra_A           46 MQFSKQTIAAISELT--------------------FRQCENFAKDLEMFARHAKRTTINTEDVKLLAR   93 (113)
T ss_dssp             CCBCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence            347777766665543                    334566777888999999999999999998864

---

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	214
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	3e-07

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

 Score = 47.6 bits (112), Expect = 3e-07
 Identities = 22/213 (10%), Positives = 64/213 (30%), Gaps = 26/213 (12%)

Query: 1   MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
            E G +  A+ G + IDE + + +     + +  +     + + G++    +R  ++ + 
Sbjct: 118 FEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSG 177

Query: 61  NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
           N   G              P +L RF +   +    D    + + +           +  
Sbjct: 178 NPEEGDL-----------RPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDAD--PKAF 224

Query: 121 VASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITV 180
           +       + +  + +            + A        + + +               +
Sbjct: 225 LEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDG-------------L 271

Query: 181 RQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL 213
           R    ++R A ++A ++        H+     +
Sbjct: 272 RGELTLLRSARALAALEGATAVGRDHLKRVATM 304

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	214
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.98
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.44
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.39
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.19
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.05
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.96
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.81
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.61
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.59
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.57
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.98
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.84
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.77
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.7
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.23
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	96.18
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	95.52
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.16
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.15
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.79
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.06
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.94
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	93.14
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	92.22
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	90.74
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	90.06
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	89.92
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	89.72
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	86.5
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	86.47
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	86.18
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	84.22
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	83.19
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	82.96
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	82.86
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	82.11

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.98  E-value=3e-33  Score=233.34  Aligned_cols=183  Identities=14%  Similarity=0.140  Sum_probs=138.3

Q ss_pred             CcceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCC
Q psy7187           2 EGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPT   81 (214)
Q Consensus         2 ~~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~   81 (214)
                      +||.+++||+||+|+||+++++++++++|+++||+|+++|+|+|.++++|++|.++||+|||.+.           ++++
T Consensus       119 ~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~-----------l~~~  187 (333)
T d1g8pa_         119 EPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGD-----------LRPQ  187 (333)
T ss_dssp             ECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCC-----------CCHH
T ss_pred             eccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccc-----------cccc
Confidence            68999999999999999999999999999999999999999999999999999999999999775           9999


Q ss_pred             CCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCC--ChHHHHHHHHHhHh-ccCCCCCHHHHHHHHHH
Q psy7187          82 ILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGEL--PLPVLKKYINYCRM-RCGPRLTHEAGEKLKNR  158 (214)
Q Consensus        82 lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l--~~~~l~~~i~~ar~-~~~p~ls~ea~~~i~~~  158 (214)
                      ++||||+.+.+.+..+......+............     .....+  ....+++.+..++. ...+.++++....+...
T Consensus       188 llDRf~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~l~~v~~~~~~~~~~~~~  262 (333)
T d1g8pa_         188 LLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPK-----AFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAAL  262 (333)
T ss_dssp             HHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHH-----HHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHH
T ss_pred             hhhhhcceeeccCcchhhHHHHHHHhhhhcccChH-----HHHHHHHHHHHHHHHHHHHHhhcccceecCHHHHHHHHHH
Confidence            99999999998776654444333322211110000     000000  11223333333322 22356778888888777


Q ss_pred             HHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         159 YVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       159 y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                      +..+             ...|+|+..+++|+|+|+|+|+++++|+++|+.+|+.+
T Consensus       263 ~~~~-------------~~~S~R~~~~llrvArtiA~L~gr~~V~~~di~~a~~l  304 (333)
T d1g8pa_         263 CIAL-------------GSDGLRGELTLLRSARALAALEGATAVGRDHLKRVATM  304 (333)
T ss_dssp             HHHS-------------SSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHHH
T ss_pred             HHHc-------------CCCChHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            7552             23489999999999999999999999999999998764

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.44  E-value=2.6e-07  Score=72.17  Aligned_cols=157  Identities=22%  Similarity=0.232  Sum_probs=96.5

Q ss_pred             cceeeccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCC
Q psy7187           3 GGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTI   82 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~l   82 (214)
                      +|.+.+|+||.+|+||++.++...+..|.+.++++++.-  -|.....+.++-||++++-.-..     -..+..+...|
T Consensus        87 ~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~--~~~~~~~~~~~RlI~~s~~~l~~-----l~~~~~f~~~L  159 (247)
T d1ny5a2          87 EGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYR--LGGRKEIEVNVRILAATNRNIKE-----LVKEGKFREDL  159 (247)
T ss_dssp             CCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECC--BTCCSBEECCCEEEEEESSCHHH-----HHHTTSSCHHH
T ss_pred             CCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEE--CCCCCceecCeEEEEecCCCHHH-----HHHcCCCcHHH
Confidence            678889999999999999999999999999999988653  44445556677888888752000     01222466777


Q ss_pred             CCcccEEEE-ecCCCCcccc-HHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHH
Q psy7187          83 LSRFDMIFI-IKDEHDETRD-ITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYV  160 (214)
Q Consensus        83 ldRFDL~~~-~~~~~~~~~d-~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~  160 (214)
                      ++|+.-..+ +++-.+...| ..++.+.+.......                       .. -.+.++++|.+.|.+|- 
T Consensus       160 ~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~-----------------------~~-~~~~ls~~al~~L~~~~-  214 (247)
T d1ny5a2         160 YYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKY-----------------------AK-EVEGFTKSAQELLLSYP-  214 (247)
T ss_dssp             HHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHT-----------------------TC-CCCEECHHHHHHHHHSC-
T ss_pred             HhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhc-----------------------CC-CCCCCCHHHHHHHHhCC-
Confidence            777764433 3222222111 123333333221110                       00 12458999998886531 


Q ss_pred             HHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHH
Q psy7187         161 LMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTE  209 (214)
Q Consensus       161 ~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~  209 (214)
                                     -+=..|.|+.+++-+-..+   -.+.|+.+|+-.
T Consensus       215 ---------------WPGNl~EL~~~l~~a~~~~---~~~~I~~~dl~~  245 (247)
T d1ny5a2         215 ---------------WYGNVRELKNVIERAVLFS---EGKFIDRGELSC  245 (247)
T ss_dssp             ---------------CTTHHHHHHHHHHHHHHHC---CSSEECHHHHHH
T ss_pred             ---------------CCCHHHHHHHHHHHHHHhC---CCCeECHHHccc
Confidence                           1124678888877555444   357899999854

>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=98.39  E-value=1.9e-05  Score=60.38  Aligned_cols=144  Identities=20%  Similarity=0.228  Sum_probs=97.3

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecc-----eEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAG-----ITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g-----~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      .++.|+++||++.++....+.++.+||.+.+.+....     ....-+.++.+++++|-...            .+.+.+
T Consensus        86 ~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~------------~~~~~l  153 (239)
T d1ixsb2          86 EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGL------------ITAPLL  153 (239)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSS------------CSCGGG
T ss_pred             cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCccc------------ccchhh
Confidence            4678999999999999999999999999877664221     12334567888877765322            456778


Q ss_pred             CcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHh
Q psy7187          84 SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMR  163 (214)
Q Consensus        84 dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r  163 (214)
                      .|+...+.+.. ++.+.-..    ++.                          ..++. ....+++++.+.|.+..    
T Consensus       154 ~~~~~~~~~~~-~~~~~~~~----i~~--------------------------~~~~~-~~i~~~~~~l~~ia~~s----  197 (239)
T d1ixsb2         154 SRFGIVEHLEY-YTPEELAQ----GVM--------------------------RDARL-LGVRITEEAALEIGRRS----  197 (239)
T ss_dssp             GGCSEEEECCC-CCHHHHHH----HHH--------------------------HHHGG-GCCCBCHHHHHHHHHHT----
T ss_pred             cccceeeEeec-cChhhhhH----HHH--------------------------HHHHH-hCCccchHHHHHHHHHc----
Confidence            88877776543 22221111    111                          11111 13456777776665432    


Q ss_pred             cCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         164 NGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       164 ~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                                   .-.+|....+++.+...|...+.+.||.+++.+|+..
T Consensus       198 -------------~gd~R~a~~~l~~~~~~a~~~~~~~It~~~~~~~l~~  234 (239)
T d1ixsb2         198 -------------RGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAA  234 (239)
T ss_dssp             -------------TSSHHHHHHHHHHHHHHHTTSCCSCBCHHHHHHHHHH
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHhh
Confidence                         1157888888888889999999999999999998753

>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=98.19  E-value=8.4e-06  Score=62.33  Aligned_cols=144  Identities=17%  Similarity=0.165  Sum_probs=91.7

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEE--ecce--EE-EEeCceEEEEeecCCCCCCCCCcccccccCCCCCC
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIA--KAGI--TT-TLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTIL   83 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~--~~g~--~~-~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~ll   83 (214)
                      ..++++|+||++++++...+.++..|+.+.+...  ..+.  .. ..+.++.+|+++|...            .++.+++
T Consensus        85 ~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~------------~~~~~~~  152 (238)
T d1in4a2          85 ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG------------LLSSPLR  152 (238)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG------------GSCHHHH
T ss_pred             ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCc------------cccccce
Confidence            3568999999999999999999999998775331  1111  11 1234677777777642            2677889


Q ss_pred             CcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHh
Q psy7187          84 SRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMR  163 (214)
Q Consensus        84 dRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r  163 (214)
                      +||+.++.+..... .   .+.. ++..                          .+.. ....+++++.+.+.++.    
T Consensus       153 ~r~~~~~~~~~~~~-~---~~~~-~l~~--------------------------~~~~-~~~~~~~~~l~~i~~~s----  196 (238)
T d1in4a2         153 SRFGIILELDFYTV-K---ELKE-IIKR--------------------------AASL-MDVEIEDAAAEMIAKRS----  196 (238)
T ss_dssp             TTCSEEEECCCCCH-H---HHHH-HHHH--------------------------HHHH-TTCCBCHHHHHHHHHTS----
T ss_pred             eeeeEEEEecCCCH-H---HHHH-HHHH--------------------------hhhh-ccchhhHHHHHHHHHhC----
Confidence            99987776543321 1   1111 1111                          1111 13356777766664321    


Q ss_pred             cCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHhc
Q psy7187         164 NGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALRL  213 (214)
Q Consensus       164 ~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~l  213 (214)
                                   .-+.|....+++.+...|.....+.||.+++.+|+..
T Consensus       197 -------------~gd~R~ai~~l~~~~~~~~~~~~~~it~~~~~~al~~  233 (238)
T d1in4a2         197 -------------RGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEV  233 (238)
T ss_dssp             -------------TTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHH
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHh
Confidence                         1267888888888887888888899999999998764

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.05  E-value=3.3e-06  Score=67.96  Aligned_cols=127  Identities=14%  Similarity=0.140  Sum_probs=79.7

Q ss_pred             eccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCC---------CCcc--c--
Q psy7187           7 VLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWD---------DTKG--E--   73 (214)
Q Consensus         7 ~la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~---------~~~~--~--   73 (214)
                      .....+|+++||++++++++++.|+++|++|.++-. .|.... -.++.++.|+|--.....         ..+.  .  
T Consensus       118 ~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~-~Gr~vd-f~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~  195 (315)
T d1r6bx3         118 IKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN-NGRKAD-FRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEE  195 (315)
T ss_dssp             HHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEET-TTEEEE-CTTEEEEEEECSSCC-----------------CHHH
T ss_pred             HhCccchhhhcccccccchHhhhhHHhhccceecCC-CCCccC-ccceEEEeccchhhHHHHhhhccchhhhhhHhHHHH
Confidence            445678999999999999999999999999999853 454443 457999999997421110         0011  1  


Q ss_pred             ccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHH
Q psy7187          74 QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGE  153 (214)
Q Consensus        74 ~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~  153 (214)
                      -...+++.|++|||.+++...- +.+.-..|+...+...                    .+.  +....+...+++++.+
T Consensus       196 l~~~f~pEflnRid~ii~f~~l-~~~~~~~I~~~~l~~~--------------------~~~--l~~~~i~l~~~~~a~~  252 (315)
T d1r6bx3         196 IKKIFTPEFRNRLDNIIWFDHL-STDVIHQVVDKFIVEL--------------------QVQ--LDQKGVSLEVSQEARN  252 (315)
T ss_dssp             HHHHSCHHHHTTCSEEEECCCC-CHHHHHHHHHHHHHHH--------------------HHH--HHHTTEEEEECHHHHH
T ss_pred             HHHhcCHHHHhhhhhhhcccch-hhhHHHHHHHHHHHHH--------------------HHH--HHhcCcchhhHHHHHH
Confidence            1235889999999987765433 3333333433333211                    111  1122234467888888


Q ss_pred             HHHHH
Q psy7187         154 KLKNR  158 (214)
Q Consensus       154 ~i~~~  158 (214)
                      +|...
T Consensus       253 ~l~~~  257 (315)
T d1r6bx3         253 WLAEK  257 (315)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            88764

>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=97.96  E-value=1.6e-06  Score=69.96  Aligned_cols=83  Identities=17%  Similarity=0.175  Sum_probs=59.8

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC-------CCCCCCcc-------cc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF-------GRWDDTKG-------EQ   74 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~-------g~~~~~~~-------~~   74 (214)
                      ...||+++||++++++++++.|+++|+.|+++- ..|... -..++.+++|+|--.       ..+.....       .-
T Consensus       124 ~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~-~~gr~v-~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l  201 (315)
T d1qvra3         124 RPYSVILFDEIEKAHPDVFNILLQILDDGRLTD-SHGRTV-DFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVL  201 (315)
T ss_dssp             CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECC-SSSCCE-ECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCCcEEEEehHhhcCHHHHHHHHHHhccCceeC-CCCcEe-cCcceEEEEecccChHHHhhhcccccchhhhhHHHHHHH
Confidence            346999999999999999999999999999884 334333 357899999999631       00111100       11


Q ss_pred             cccCCCCCCCcccEEEEec
Q psy7187          75 NIDFMPTILSRFDMIFIIK   93 (214)
Q Consensus        75 ~~~l~~~lldRFDL~~~~~   93 (214)
                      ...+++.+++|||.++...
T Consensus       202 ~~~f~pEflnRid~Ii~F~  220 (315)
T d1qvra3         202 QQHFRPEFLNRLDEIVVFR  220 (315)
T ss_dssp             HTTSCHHHHHTCSBCCBCC
T ss_pred             HhhcCHHHHhcCCeeeecc
Confidence            2459999999999877653

>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=97.81  E-value=0.00013  Score=55.67  Aligned_cols=121  Identities=18%  Similarity=0.114  Sum_probs=75.9

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      -|++|||++.|+.+.+++|+..||+.             |.++.++.++|...            ++.+++.||+ ..+.
T Consensus       117 kviiIde~d~l~~~~q~~Llk~lE~~-------------~~~~~~il~tn~~~------------~i~~~i~SRc-~~i~  170 (239)
T d1njfa_         117 KVYLIDEVHMLSRHSFNALLKTLEEP-------------PEHVKFLLATTDPQ------------KLPVTILSRC-LQFH  170 (239)
T ss_dssp             EEEEEETGGGSCHHHHHHHHHHHHSC-------------CTTEEEEEEESCGG------------GSCHHHHTTS-EEEE
T ss_pred             EEEEEECcccCCHHHHHHHHHHHhcC-------------CCCeEEEEEcCCcc------------ccChhHhhhh-cccc
Confidence            38999999999999999999999963             34456666666532            3778999999 3443


Q ss_pred             ecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCC
Q psy7187          92 IKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGE  171 (214)
Q Consensus        92 ~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~  171 (214)
                      +.. ++.   ..+..++..                           .++. -.+.+++++.+.|.+..            
T Consensus       171 ~~~-~~~---~~i~~~l~~---------------------------i~~~-e~~~~~~~~l~~i~~~s------------  206 (239)
T d1njfa_         171 LKA-LDV---EQIRHQLEH---------------------------ILNE-EHIAHEPRALQLLARAA------------  206 (239)
T ss_dssp             CCC-CCH---HHHHHHHHH---------------------------HHHH-HTCCBCHHHHHHHHHHT------------
T ss_pred             ccc-CcH---HHhhhHHHH---------------------------HHhh-hccCCCHHHHHHHHHHc------------
Confidence            322 221   122222211                           1111 13467888877775431            


Q ss_pred             CccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         172 KKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       172 ~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                           .=++|....++..+.+.    +.+.|+.+||.+++
T Consensus       207 -----~Gd~R~ain~l~~~~~~----~~~~I~~~~v~~~l  237 (239)
T d1njfa_         207 -----EGSLRDALSLTDQAIAS----GDGQVSTQAVSAML  237 (239)
T ss_dssp             -----TTCHHHHHHHHHHHHHH----TTTSBCHHHHHHHH
T ss_pred             -----CCCHHHHHHHHHHHHHh----CCCCcCHHHHHHHh
Confidence                 01567666666544333    35789999998876

>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=97.61  E-value=5.9e-05  Score=61.64  Aligned_cols=152  Identities=18%  Similarity=0.236  Sum_probs=82.1

Q ss_pred             cceeeccCCceEeeccCCC--------------CCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCC---C
Q psy7187           3 GGAMVLADGGVVCIDEFDK--------------MREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVF---G   65 (214)
Q Consensus         3 ~G~l~la~~Gv~~iDE~~~--------------~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~---g   65 (214)
                      +|.+-.+.+||+++||+++              ..+++++.|++.|+.+.+++...+....-..++.++.+.|-..   |
T Consensus       126 ~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~g  205 (364)
T d1um8a_         126 DWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAG  205 (364)
T ss_dssp             TTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEE
T ss_pred             hhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcc
Confidence            4556677889999999999              7788999999999988877654433222223344555555410   0


Q ss_pred             CC----------------CCCcc------c------------ccccCCCCCCCcccEEEEecCCCCccccHHHHHHHHHH
Q psy7187          66 RW----------------DDTKG------E------------QNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKV  111 (214)
Q Consensus        66 ~~----------------~~~~~------~------------~~~~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~  111 (214)
                      .+                .....      .            -...+.+.|+.|||.++.+..- +.+    --.+|+..
T Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~gRi~~iv~f~~L-~~~----~l~~Il~~  280 (364)
T d1um8a_         206 AFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSI-SLE----AMVDILQK  280 (364)
T ss_dssp             CCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCC-CHH----HHHHHHHS
T ss_pred             cchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHHHHhcchhhHhhh-hHH----HHHHHHHH
Confidence            00                00000      0            0134788999999998877433 221    12233331


Q ss_pred             HHhhcccCCcCCCCCCChHHHHHHHHHh-HhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHH
Q psy7187         112 HMTAGQEIDVASDGELPLPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVR  188 (214)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~l~~~i~~a-r~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lir  188 (214)
                      .               -...+++|-... ...+.-.+++++.++|.+....              ..++.|.|.++|.
T Consensus       281 ~---------------~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d--------------~~~GAR~L~riie  329 (364)
T d1um8a_         281 P---------------KNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALE--------------RKTGARGLRAIIE  329 (364)
T ss_dssp             S---------------TTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHH--------------TTCTGGGHHHHHH
T ss_pred             H---------------HHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccC--------------CCCCchHHHHHHH
Confidence            0               112445554322 2224456899999999875432              2456787777763

>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=97.59  E-value=2.8e-05  Score=60.25  Aligned_cols=36  Identities=17%  Similarity=0.051  Sum_probs=31.2

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      +.|.+.+..+++-|.-.|--+.++.|+.+|+++|+.
T Consensus       212 g~s~~di~~lv~~A~l~a~~~~~~~i~~~d~~~A~~  247 (247)
T d1ixza_         212 GFVGADLENLLNEAALLAAREGRRKITMKDLEEAAS  247 (247)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHhhC
Confidence            467888889999888888888899999999999974

>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=97.57  E-value=0.00014  Score=54.80  Aligned_cols=124  Identities=18%  Similarity=0.192  Sum_probs=82.1

Q ss_pred             ceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEEE
Q psy7187          12 GVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIFI   91 (214)
Q Consensus        12 Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~~   91 (214)
                      -|++|||++.+....+.+|+..|++..             ..+.++.++|...            .+.+++.+|+ ..+.
T Consensus       101 kiiiiDe~d~~~~~~~~~Ll~~le~~~-------------~~~~~~~~~~~~~------------~i~~~i~sr~-~~i~  154 (227)
T d1sxjc2         101 KLIILDEADAMTNAAQNALRRVIERYT-------------KNTRFCVLANYAH------------KLTPALLSQC-TRFR  154 (227)
T ss_dssp             EEEEETTGGGSCHHHHHHHHHHHHHTT-------------TTEEEEEEESCGG------------GSCHHHHTTS-EEEE
T ss_pred             EEEEEeccccchhhHHHHHHHHhhhcc-------------cceeeccccCcHH------------HhHHHHHHHH-hhhc
Confidence            499999999999999999999999632             2455556666532            2778888998 3343


Q ss_pred             ecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHH-hHhccCCCCCHHHHHHHHHHHHHHhcCCCcCC
Q psy7187          92 IKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINY-CRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDG  170 (214)
Q Consensus        92 ~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~-ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~  170 (214)
                      +.. +                               +.+.+++++.. +++ -...+++++.+.|.+...          
T Consensus       155 ~~~-~-------------------------------~~~~i~~~l~~I~~~-e~i~i~~~~l~~i~~~s~----------  191 (227)
T d1sxjc2         155 FQP-L-------------------------------PQEAIERRIANVLVH-EKLKLSPNAEKALIELSN----------  191 (227)
T ss_dssp             CCC-C-------------------------------CHHHHHHHHHHHHHT-TTCCBCHHHHHHHHHHHT----------
T ss_pred             ccc-c-------------------------------ccccccccccccccc-ccccCCHHHHHHHHHHcC----------
Confidence            322 1                               22233333322 222 133578888888866531          


Q ss_pred             CCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHH
Q psy7187         171 EKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEAL  211 (214)
Q Consensus       171 ~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai  211 (214)
                             =.+|....++..+...+.....+.|+.++|.+|+
T Consensus       192 -------Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~  225 (227)
T d1sxjc2         192 -------GDMRRVLNVLQSCKATLDNPDEDEISDDVIYECC  225 (227)
T ss_dssp             -------TCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHT
T ss_pred             -------CcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHh
Confidence                   0467777777666666777778999999999986

>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=96.98  E-value=0.00063  Score=52.58  Aligned_cols=36  Identities=14%  Similarity=0.002  Sum_probs=30.1

Q ss_pred             ccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         177 PITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       177 ~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      ++|.+.+..+++-|-..|.-+.+..|+.+|+..|++
T Consensus       215 G~s~adi~~l~~~A~~~a~~~~~~~i~~~d~~~Al~  250 (256)
T d1lv7a_         215 GFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKD  250 (256)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            467888888888887777778888999999999974

>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=96.84  E-value=0.0071  Score=45.00  Aligned_cols=127  Identities=15%  Similarity=0.121  Sum_probs=75.8

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      ..|++|||++.+..+....|+..++...             ..+.++.+.|...            ++..++.+|| ..+
T Consensus       109 ~~viiiDe~d~l~~~~~~~l~~~~~~~~-------------~~~~~i~~~~~~~------------~~~~~l~sr~-~~i  162 (237)
T d1sxjd2         109 YKIIILDEADSMTADAQSALRRTMETYS-------------GVTRFCLICNYVT------------RIIDPLASQC-SKF  162 (237)
T ss_dssp             CEEEEETTGGGSCHHHHHHHHHHHHHTT-------------TTEEEEEEESCGG------------GSCHHHHHHS-EEE
T ss_pred             ceEEEEecccccCHHHHHHHhhcccccc-------------ccccccccccccc------------cccccccchh-hhh
Confidence            3489999999999999999999888643             2334444444321            2567788888 344


Q ss_pred             EecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCC
Q psy7187          91 IIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDG  170 (214)
Q Consensus        91 ~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~  170 (214)
                      .+ ++++.+                               .+++++...-..-...+++++.+.|.+..           
T Consensus       163 ~f-~~~~~~-------------------------------~~~~~L~~i~~~e~i~i~~~~l~~ia~~s-----------  199 (237)
T d1sxjd2         163 RF-KALDAS-------------------------------NAIDRLRFISEQENVKCDDGVLERILDIS-----------  199 (237)
T ss_dssp             EC-CCCCHH-------------------------------HHHHHHHHHHHTTTCCCCHHHHHHHHHHT-----------
T ss_pred             cc-cccccc-------------------------------ccchhhhhhhhhhcCcCCHHHHHHHHHHc-----------
Confidence            33 333322                               12222211111012357888887776532           


Q ss_pred             CCccccccCHHHHHHHHHHHHHHhccC-CCCCCcHHHHHHHHh
Q psy7187         171 EKKLNIPITVRQLEAIVRIAESMAKMQ-LEPFAIDSHVTEALR  212 (214)
Q Consensus       171 ~~~~~~~~s~R~l~~lirlA~a~A~l~-~r~~V~~~Dv~~Ai~  212 (214)
                            .=.+|....++..+...+... -.+.|+.++|.+++.
T Consensus       200 ------~gd~R~ai~~L~~~~~~~~~~~~~~~It~~~i~e~~g  236 (237)
T d1sxjd2         200 ------AGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG  236 (237)
T ss_dssp             ------SSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHT
T ss_pred             ------CCCHHHHHHHHHHHHHhchhcCCCCccCHHHHHHhhC
Confidence                  014676666665555555443 346799999999864

>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=96.83  E-value=0.0041  Score=46.46  Aligned_cols=56  Identities=23%  Similarity=0.299  Sum_probs=43.3

Q ss_pred             ccCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           8 LADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      -....|+++||++.+..+....|+..|+.+.             ..+.+++++|...            .+..++.+||.
T Consensus       107 ~~~~~iilide~d~~~~~~~~~ll~~l~~~~-------------~~~~~i~~~n~~~------------~i~~~l~sR~~  161 (231)
T d1iqpa2         107 GASFKIIFLDEADALTQDAQQALRRTMEMFS-------------SNVRFILSCNYSS------------KIIEPIQSRCA  161 (231)
T ss_dssp             GCSCEEEEEETGGGSCHHHHHHHHHHHHHTT-------------TTEEEEEEESCGG------------GSCHHHHHTEE
T ss_pred             CCCceEEeehhhhhcchhHHHHHhhhcccCC-------------cceEEEeccCChh------------hchHhHhCccc
Confidence            3467899999999999999999999998643             2356677777642            26788999995


Q ss_pred             E
Q psy7187          88 M   88 (214)
Q Consensus        88 L   88 (214)
                      .
T Consensus       162 ~  162 (231)
T d1iqpa2         162 I  162 (231)
T ss_dssp             E
T ss_pred             c
Confidence            4

>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=96.77  E-value=0.011  Score=45.57  Aligned_cols=125  Identities=12%  Similarity=0.090  Sum_probs=71.3

Q ss_pred             ccCCceEeeccCCCCC---------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187           8 LADGGVVCIDEFDKMR---------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus         8 la~~Gv~~iDE~~~~~---------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      .+.+-|+||||+..+=         .+.-+.|...|+.|.               +.+||++.|.+=       ...+.-
T Consensus       108 ~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~---------------i~vIgatT~eey-------~~~~e~  165 (268)
T d1r6bx2         108 QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGK---------------IRVIGSTTYQEF-------SNIFEK  165 (268)
T ss_dssp             SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCC---------------CEEEEEECHHHH-------HCCCCC
T ss_pred             ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCC---------------CeEEEeCCHHHH-------HHHHhh
Confidence            3455789999999972         234455556666554               677899988621       112234


Q ss_pred             CCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHH
Q psy7187          79 MPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKN  157 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~  157 (214)
                      .+.|..||.-+-+  +.++.+....|...+......       ..+-.++.+.++..+.++.+++. -.+++.|.++|..
T Consensus       166 d~al~rrF~~I~V--~Eps~e~t~~IL~~~~~~~e~-------~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDe  236 (268)
T d1r6bx2         166 DRALARRFQKIDI--TEPSIEETVQIINGLKPKYEA-------HHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDE  236 (268)
T ss_dssp             TTSSGGGEEEEEC--CCCCHHHHHHHHHHHHHHHHH-------HHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHH
T ss_pred             cHHHHhhhccccc--CCCCHHHHHHHHHHhhHHHhc-------cCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHH
Confidence            5789999974432  334444443433332222211       12234566777777777766542 2566777777766


Q ss_pred             HHHHHh
Q psy7187         158 RYVLMR  163 (214)
Q Consensus       158 ~y~~~r  163 (214)
                      ..+..|
T Consensus       237 a~a~~~  242 (268)
T d1r6bx2         237 AGARAR  242 (268)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554433

>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=96.70  E-value=0.0012  Score=50.23  Aligned_cols=59  Identities=7%  Similarity=-0.088  Sum_probs=44.0

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++.++|.+....  ....      ....-++|....+++.|...|..+++..|+.+||.+|.+
T Consensus       213 ~~~~~~l~~ia~~~~~--~~~~------~~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~  271 (276)
T d1fnna2         213 SYSEDILQMIADITGA--QTPL------DTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  271 (276)
T ss_dssp             SSCHHHHHHHHHHHSB--SSTT------CTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHhhh--hhhh------hhcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            4788888888765421  1110      011236899999999999999999999999999999975

>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=96.23  E-value=0.014  Score=43.30  Aligned_cols=57  Identities=21%  Similarity=0.253  Sum_probs=42.2

Q ss_pred             CCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEE
Q psy7187          10 DGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMI   89 (214)
Q Consensus        10 ~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~   89 (214)
                      ...|+++||++.+....+.+|+..|+..             +..+.++.++|+..            ++..+|.+|+- .
T Consensus       101 ~~kviiiDe~d~~~~~~~~~ll~~~e~~-------------~~~~~~i~~~~~~~------------~i~~~l~sr~~-~  154 (224)
T d1sxjb2         101 KHKIVILDEADSMTAGAQQALRRTMELY-------------SNSTRFAFACNQSN------------KIIEPLQSQCA-I  154 (224)
T ss_dssp             CCEEEEEESGGGSCHHHHHTTHHHHHHT-------------TTTEEEEEEESCGG------------GSCHHHHTTSE-E
T ss_pred             ceEEEEEecccccchhHHHHHhhhcccc-------------ccceeeeeccCchh------------hhhhHHHHHHH-H
Confidence            3469999999999999999999999852             33455666666542            27788999993 4


Q ss_pred             EEe
Q psy7187          90 FII   92 (214)
Q Consensus        90 ~~~   92 (214)
                      +.+
T Consensus       155 i~~  157 (224)
T d1sxjb2         155 LRY  157 (224)
T ss_dssp             EEC
T ss_pred             hhh
Confidence            433

>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanothermus fervidus, histone A [TaxId: 2180]

Probab=96.18  E-value=0.039  Score=33.01  Aligned_cols=66  Identities=23%  Similarity=0.229  Sum_probs=51.8

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.-.   -.+.+++++...+.+.....                    +..|..-|..+|+-..|.+|+.+
T Consensus         3 eLP~a~I~ri~k~~---~~~ris~ea~~~l~~~~e~f--------------------i~~l~~~a~~~a~~~kRkTi~~~   59 (68)
T d1htaa_           3 ELPIAPIGRIIKNA---GAERVSDDARIALAKVLEEM--------------------GEEIASEAVKLAKHAGRKTIKAE   59 (68)
T ss_dssp             CSCHHHHHHHHHHT---TCSCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSCCHH
T ss_pred             cCcHHHHHHHHHHC---CcchhhHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhCCCcCCHH
Confidence            46777777775432   23578999988887765431                    56788899999999999999999


Q ss_pred             HHHHHHhcC
Q psy7187         206 HVTEALRLF  214 (214)
Q Consensus       206 Dv~~Ai~lf  214 (214)
                      ||..|++-|
T Consensus        60 DV~~Alk~~   68 (68)
T d1htaa_          60 DIELARKMF   68 (68)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHHhC
Confidence            999999865

>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon (Pyrococcus horikoshii) [TaxId: 53953]

Probab=95.52  E-value=0.047  Score=32.46  Aligned_cols=64  Identities=17%  Similarity=0.184  Sum_probs=50.2

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      ++|...+++.+.-.   ..+.++.++...+.+....                    -+..|.+-|..+|.-.+|.+|+.+
T Consensus         2 ~LP~a~I~rI~k~~---~~~ris~ea~~~l~~a~e~--------------------Fi~~l~~~a~~~a~~~~RKTI~~~   58 (66)
T d1ku5a_           2 ELPIAPVDRLIRKA---GAERVSEQAAKVLAEYLEE--------------------YAIEIAKKAVEFARHAGRKTVKVE   58 (66)
T ss_dssp             CSCHHHHHHHHHHT---TCSEECHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTTCSEECHH
T ss_pred             CCCHHHHHHHHHhC---cccccHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHcCCCCCCHH
Confidence            56777777776533   2346899998888776543                    166888999999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|++
T Consensus        59 Dv~~Al~   65 (66)
T d1ku5a_          59 DIKLAIK   65 (66)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9999985

>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=95.16  E-value=0.019  Score=42.88  Aligned_cols=56  Identities=18%  Similarity=0.294  Sum_probs=42.5

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccEEE
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDMIF   90 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL~~   90 (214)
                      .-+++|||++.+..+....|+..||+.             +.++.+|+++|....            +.+++.||| ..+
T Consensus       132 ~~iiiide~d~l~~~~~~~l~~~~e~~-------------~~~~~~Il~tn~~~~------------i~~~l~sR~-~~i  185 (252)
T d1sxje2         132 YKCVIINEANSLTKDAQAALRRTMEKY-------------SKNIRLIMVCDSMSP------------IIAPIKSQC-LLI  185 (252)
T ss_dssp             CEEEEEECTTSSCHHHHHHHHHHHHHS-------------TTTEEEEEEESCSCS------------SCHHHHTTS-EEE
T ss_pred             ceEEEeccccccccccchhhhcccccc-------------cccccceeeeccccc------------hhhhhhcch-hee
Confidence            348899999999999999999999962             334566777776432            778899999 444


Q ss_pred             Ee
Q psy7187          91 II   92 (214)
Q Consensus        91 ~~   92 (214)
                      .+
T Consensus       186 ~~  187 (252)
T d1sxje2         186 RC  187 (252)
T ss_dssp             EC
T ss_pred             ee
Confidence            44

>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=95.15  E-value=0.017  Score=44.06  Aligned_cols=67  Identities=24%  Similarity=0.278  Sum_probs=42.0

Q ss_pred             ceEeeccCCCCCHH-----------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC
Q psy7187          12 GVVCIDEFDKMRED-----------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP   80 (214)
Q Consensus        12 Gv~~iDE~~~~~~~-----------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~   80 (214)
                      .|+++||++.+-.+           .+..++..+...           ..+.+..||||+|-...            +.+
T Consensus        99 ~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~vlvi~tTn~~~~------------ld~  155 (258)
T d1e32a2          99 AIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL-----------KQRAHVIVMAATNRPNS------------IDP  155 (258)
T ss_dssp             EEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTC-----------CCSSCEEEEEEESCGGG------------SCG
T ss_pred             eEEEehhhhhhccCCCCCCCchHHHHHHHhccccccc-----------cccCCccEEEeCCCccc------------cch
Confidence            69999999997532           334444444321           22445788999886432            677


Q ss_pred             CCCC--cccEEEEecCCCCccccH
Q psy7187          81 TILS--RFDMIFIIKDEHDETRDI  102 (214)
Q Consensus        81 ~lld--RFDL~~~~~~~~~~~~d~  102 (214)
                      +++.  |||-.+.+. .|+.+...
T Consensus       156 al~r~gRfd~~i~~~-~P~~~~R~  178 (258)
T d1e32a2         156 ALRRFGRFDREVDIG-IPDATGRL  178 (258)
T ss_dssp             GGTSTTSSCEEEECC-CCCHHHHH
T ss_pred             hhhhcccccceeECC-CCCHHHHH
Confidence            8876  899887764 34444333

>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=94.79  E-value=0.0087  Score=44.22  Aligned_cols=59  Identities=14%  Similarity=0.194  Sum_probs=44.4

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCCcccE
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILSRFDM   88 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lldRFDL   88 (214)
                      +...|++|||++.|..+.+++|+..||+.             |..+.+|.++|-..            ++.+++.||+ +
T Consensus       107 ~~~kviIide~d~l~~~a~n~Llk~lEep-------------~~~~~fIl~t~~~~------------~ll~tI~SRc-~  160 (207)
T d1a5ta2         107 GGAKVVWVTDAALLTDAAANALLKTLEEP-------------PAETWFFLATREPE------------RLLATLRSRC-R  160 (207)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSC-------------CTTEEEEEEESCGG------------GSCHHHHTTS-E
T ss_pred             CccceEEechhhhhhhhhhHHHHHHHHhh-------------cccceeeeeecChh------------hhhhhhccee-E
Confidence            34569999999999999999999999972             44566666555421            3778899999 5


Q ss_pred             EEEec
Q psy7187          89 IFIIK   93 (214)
Q Consensus        89 ~~~~~   93 (214)
                      .+.+.
T Consensus       161 ~i~~~  165 (207)
T d1a5ta2         161 LHYLA  165 (207)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            55553

>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=94.06  E-value=0.033  Score=43.58  Aligned_cols=73  Identities=21%  Similarity=0.288  Sum_probs=45.6

Q ss_pred             CceEeeccCCCCCHH------------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccC
Q psy7187          11 GGVVCIDEFDKMRED------------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDF   78 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l   78 (214)
                      .+|+|+||++++.+.            +++.|+..|+..+++. +. ... -.++..++++.+....        ....+
T Consensus       116 ~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~-~~-~~i-~~s~ilfi~~ga~~~~--------~~~~~  184 (309)
T d1ofha_         116 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST-KH-GMV-KTDHILFIASGAFQVA--------RPSDL  184 (309)
T ss_dssp             HCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEE-TT-EEE-ECTTCEEEEEECCSSS--------CGGGS
T ss_pred             CceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEec-CC-eEE-EccceeEEeccchhhc--------Ccccc
Confidence            489999999998753            6677888898666553 11 111 1234445555433211        12347


Q ss_pred             CCCCCCcccEEEEecC
Q psy7187          79 MPTILSRFDMIFIIKD   94 (214)
Q Consensus        79 ~~~lldRFDL~~~~~~   94 (214)
                      .+.++.|||-++.+..
T Consensus       185 ~p~l~~R~~~~i~~~~  200 (309)
T d1ofha_         185 IPELQGRLPIRVELTA  200 (309)
T ss_dssp             CHHHHHTCCEEEECCC
T ss_pred             hhhhhhhhheeeeccC
Confidence            7888899998777643

>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=93.94  E-value=0.17  Score=40.73  Aligned_cols=120  Identities=16%  Similarity=0.184  Sum_probs=69.3

Q ss_pred             eEeeccCCCCC--------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCCCCCC
Q psy7187          13 VVCIDEFDKMR--------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMPTILS   84 (214)
Q Consensus        13 v~~iDE~~~~~--------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~~lld   84 (214)
                      |+||||+..+=        .+.-+.|.-+|..|.               +.+|||+.|.+-+        .+.=.++|..
T Consensus       118 ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~---------------~~~I~~tT~~ey~--------~~e~d~al~r  174 (387)
T d1qvra2         118 ILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE---------------LRLIGATTLDEYR--------EIEKDPALER  174 (387)
T ss_dssp             EEEECCC-------------------HHHHHTTC---------------CCEEEEECHHHHH--------HHTTCTTTCS
T ss_pred             EEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCC---------------cceeeecCHHHHH--------HhcccHHHHH
Confidence            69999999872        234456666676554               6678888885211        1223578999


Q ss_pred             cccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHhccC-CCCCHHHHHHHHHHHHHHh
Q psy7187          85 RFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRMRCG-PRLTHEAGEKLKNRYVLMR  163 (214)
Q Consensus        85 RFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~~~~-p~ls~ea~~~i~~~y~~~r  163 (214)
                      ||..+.+  +.++.+....    |+.........   ...-.++.+-+...+.++.+|+. -.+++.|.++|.......|
T Consensus       175 rF~~v~v--~ep~~~~~~~----il~~~~~~~e~---~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~~~  245 (387)
T d1qvra2         175 RFQPVYV--DEPTVEETIS----ILRGLKEKYEV---HHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLR  245 (387)
T ss_dssp             CCCCEEE--CCCCHHHHHH----HHHHHHHHHHH---HTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHHHH
T ss_pred             hcccccC--CCCcHHHHHH----HHHHHHHHHHh---ccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHHHHH
Confidence            9975544  3344443333    34333222111   12335788889988888888753 3678899999998877655


Q ss_pred             c
Q psy7187         164 N  164 (214)
Q Consensus       164 ~  164 (214)
                      -
T Consensus       246 i  246 (387)
T d1qvra2         246 M  246 (387)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=93.14  E-value=0.26  Score=36.60  Aligned_cols=56  Identities=14%  Similarity=0.022  Sum_probs=43.2

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .+++++.++|.+......  .         ..-.+|....+++.|...|..++++.|+++||++|+.
T Consensus       230 ~~~~~al~~ia~~~~~~~--~---------~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         230 VWEPRHLELISDVYGEDK--G---------GDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             SCCHHHHHHHHHHHCGGG--T---------SCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhccc--c---------CCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            478888888877552211  1         1125888888899999999999999999999999985

>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, alpha chain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.22  E-value=0.14  Score=30.26  Aligned_cols=65  Identities=14%  Similarity=0.185  Sum_probs=43.7

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.....  ...++.++.-++.+.-...                    +..|...|..+|.-+.|..|+.+
T Consensus         2 ~fP~srVkkimk~~~~--~~~is~~A~~~~~~a~E~F--------------------i~~l~~~A~~~a~~~krktI~~~   59 (66)
T d1jfia_           2 RFPPARIKKIMQTDEE--IGKVAAAVPVIISRALELF--------------------LESLLKKACQVTQSRNAKTMTTS   59 (66)
T ss_dssp             CCCHHHHHHHHTTSTT--CCCBCTTHHHHHHHHHHHH--------------------HHHHHHHHHHHHHTC---CBCHH
T ss_pred             CCChHHHHHHHhcCCc--cccccHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhCCCcCCHH
Confidence            3566667776653322  2367788877776654331                    45778899999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      |+..|++
T Consensus        60 dl~~ai~   66 (66)
T d1jfia_          60 HLKQCIE   66 (66)
T ss_dssp             HHHTTCC
T ss_pred             HHHHHhC
Confidence            9998874

>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit gamma (Nf-Yc2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.74  E-value=0.48  Score=28.69  Aligned_cols=63  Identities=13%  Similarity=0.065  Sum_probs=44.4

Q ss_pred             ChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHH
Q psy7187         128 PLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHV  207 (214)
Q Consensus       128 ~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv  207 (214)
                      |...+++.+..-..  ...++.++...+.+.-...                    +..|..-|...|+-+.|+.|+.+|+
T Consensus         2 P~srVkrImK~~~~--~~~is~ea~~~i~~a~E~F--------------------i~~l~~~A~~~a~~~~rkti~~~dl   59 (78)
T d1n1jb_           2 PLARIKKIMKLDED--VKMISAEAPVLFAKAAQIF--------------------ITELTLRAWIHTEDNKRRTLQRNDI   59 (78)
T ss_dssp             CHHHHHHHHTTSTT--CCCBCTHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSEECHHHH
T ss_pred             CHHHHHHHHhcCCc--ccccchHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCCcCCHHHH
Confidence            44455555431111  2356788887777665431                    5578889999999999999999999


Q ss_pred             HHHHh
Q psy7187         208 TEALR  212 (214)
Q Consensus       208 ~~Ai~  212 (214)
                      ..|+.
T Consensus        60 ~~av~   64 (78)
T d1n1jb_          60 AMAIT   64 (78)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            99975

>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, beta chain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.06  E-value=1.5  Score=29.52  Aligned_cols=65  Identities=20%  Similarity=0.220  Sum_probs=50.4

Q ss_pred             CCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         126 ELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       126 ~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      .+|...+++.+.-.-.  ...++.++...+.+.....                    +..|..-|..+|.-..|.+|+.+
T Consensus         4 ~LP~a~I~kI~K~~~~--~~~is~dA~~~i~~a~~~F--------------------i~~lt~~A~~~a~~~~RkTi~~~   61 (135)
T d1jfib_           4 TIPRAAINKMIKETLP--NVRVANDARELVVNCCTEF--------------------IHLISSEANEICNKSEKKTISPE   61 (135)
T ss_dssp             CCCHHHHHHHHHHHST--TCCBCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSBCHH
T ss_pred             cccHHHHHHHHhhCCc--cchhhHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhCCCcccHH
Confidence            4677778887765432  2357999988888776442                    55777889999999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        62 Dv~~Al~   68 (135)
T d1jfib_          62 HVIQALE   68 (135)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999975

>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=89.92  E-value=0.1  Score=37.88  Aligned_cols=57  Identities=19%  Similarity=0.292  Sum_probs=41.5

Q ss_pred             cCCceEeeccCCCCCHHHHHHHHHhhhcCeEEEEecceEEEEeCceEE-EEeecCCCCCCCCCcccccccCCCCCCCccc
Q psy7187           9 ADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSV-LAAANSVFGRWDDTKGEQNIDFMPTILSRFD   87 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~v-iaa~Np~~g~~~~~~~~~~~~l~~~lldRFD   87 (214)
                      +..-|++|||++.|+....++|+..||+-             |..+.+ +.|.||.             .+.+.+.||+ 
T Consensus        78 ~~~KviIId~ad~l~~~aqNaLLK~LEEP-------------p~~t~fiLit~~~~-------------~ll~TI~SRC-  130 (198)
T d2gnoa2          78 YTRKYVIVHDCERMTQQAANAFLKALEEP-------------PEYAVIVLNTRRWH-------------YLLPTIKSRV-  130 (198)
T ss_dssp             SSSEEEEETTGGGBCHHHHHHTHHHHHSC-------------CTTEEEEEEESCGG-------------GSCHHHHTTS-
T ss_pred             CCCEEEEEeCccccchhhhhHHHHHHhCC-------------CCCceeeeccCChh-------------hCHHHHhcce-
Confidence            34469999999999999999999999972             223333 3344442             3889999999 


Q ss_pred             EEEEe
Q psy7187          88 MIFII   92 (214)
Q Consensus        88 L~~~~   92 (214)
                      ..+.+
T Consensus       131 ~~i~~  135 (198)
T d2gnoa2         131 FRVVV  135 (198)
T ss_dssp             EEEEC
T ss_pred             EEEeC
Confidence            55554

>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit beta (Nf-Yb3)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.72  E-value=1.1  Score=27.64  Aligned_cols=64  Identities=11%  Similarity=0.128  Sum_probs=46.0

Q ss_pred             CChHHHHHHHHHh-HhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHH
Q psy7187         127 LPLPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDS  205 (214)
Q Consensus       127 l~~~~l~~~i~~a-r~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~  205 (214)
                      +|...+++.+.-+ ..  ...++.++...+.+.....                    +..|..-|..+|.-..|.+|+.+
T Consensus         3 LP~a~v~ri~K~~~p~--~~~is~ea~~~i~~a~e~F--------------------i~~lt~~A~~~a~~~~rKTI~~~   60 (87)
T d1n1ja_           3 LPIANVARIMKNAIPQ--TGKIAKDAKECVQECVSEF--------------------ISFITSEASERCHQEKRKTINGE   60 (87)
T ss_dssp             CCHHHHHHHHHHTSCT--TCEECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSBCHH
T ss_pred             CcHhHHHHHHHHhCCc--cccccHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHCCCCCCHH
Confidence            4556666665322 11  1357889988887765431                    45677788899999999999999


Q ss_pred             HHHHHHh
Q psy7187         206 HVTEALR  212 (214)
Q Consensus       206 Dv~~Ai~  212 (214)
                      ||..|+.
T Consensus        61 dv~~Al~   67 (87)
T d1n1ja_          61 DILFAMS   67 (87)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999975

>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=86.50  E-value=0.55  Score=35.33  Aligned_cols=67  Identities=25%  Similarity=0.313  Sum_probs=40.5

Q ss_pred             CceEeeccCCCCCHH--------------HHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187          11 GGVVCIDEFDKMRED--------------DRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~--------------~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      -+|++|||++.+-.+              +++.|+..|+.         ...  ..+..||||+|-...           
T Consensus       101 p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~---------~~~--~~~v~vi~ttn~~~~-----------  158 (265)
T d1r7ra3         101 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDG---------MST--KKNVFIIGATNRPDI-----------  158 (265)
T ss_dssp             SEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC-----------------CCEEEECCBSCTT-----------
T ss_pred             CcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhC---------cCC--CCCEEEEEeCCCchh-----------
Confidence            389999999975421              34556555541         111  124678898886432           


Q ss_pred             cCCCCCC--CcccEEEEecCCCCcccc
Q psy7187          77 DFMPTIL--SRFDMIFIIKDEHDETRD  101 (214)
Q Consensus        77 ~l~~~ll--dRFDL~~~~~~~~~~~~d  101 (214)
                       |+++++  +|||-.+.+. .++.+..
T Consensus       159 -ld~al~r~gRf~~~i~~~-~p~~~~R  183 (265)
T d1r7ra3         159 -IDPAILRPGRLDQLIYIP-LPDEKSR  183 (265)
T ss_dssp             -TSCGGGSSTTSEEEEECC-CCCCHHH
T ss_pred             -CCHHHhCCCCccEEEEec-chHHHHH
Confidence             788887  4999888764 3444433

>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=86.47  E-value=0.0048  Score=49.00  Aligned_cols=51  Identities=14%  Similarity=0.131  Sum_probs=23.9

Q ss_pred             CceEeeccCCCCCHHHHHHHHHhhhcCeEEE---EecceEEEEeCceEEEEeecCC
Q psy7187          11 GGVVCIDEFDKMREDDRVAIHEAMEQQTISI---AKAGITTTLNSRCSVLAAANSV   63 (214)
Q Consensus        11 ~Gv~~iDE~~~~~~~~~~~L~e~me~~~i~i---~~~g~~~~lpa~~~viaa~Np~   63 (214)
                      ..|+|||||+.+...-.......+.+++++-   +-.|.  ..+..+.|+||+||.
T Consensus       183 ~~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~--~~~~~v~viaatN~~  236 (321)
T d1w44a_         183 HRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAM--AASRGCVVIASLNPT  236 (321)
T ss_dssp             CSEEEEECCTTTC-----------CCHHHHHHHHHHHHH--HHHHTCEEEEECCCC
T ss_pred             ccEEEeehhhhhccccccCCCCCcchhhhhhhhhhcccc--ccCCCeEEEEeCCCc
Confidence            4599999999986543222222222111110   00121  123458999999984

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=86.18  E-value=0.097  Score=39.39  Aligned_cols=60  Identities=8%  Similarity=0.165  Sum_probs=38.4

Q ss_pred             ceEeeccCCCC----------CHHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccccCCC-
Q psy7187          12 GVVCIDEFDKM----------REDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNIDFMP-   80 (214)
Q Consensus        12 Gv~~iDE~~~~----------~~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~~l~~-   80 (214)
                      .|+||||++.+          ...+++.|+..|+...-    .      ..+..|+||+|-.+.            ++. 
T Consensus       102 ~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~----~------~~~v~vi~tTn~~~~------------ld~~  159 (246)
T d1d2na_         102 SCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP----Q------GRKLLIIGTTSRKDV------------LQEM  159 (246)
T ss_dssp             EEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS----T------TCEEEEEEEESCHHH------------HHHT
T ss_pred             ceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCc----c------ccceeeeeccCChhh------------ccch
Confidence            79999999653          44566777777764320    1      124678899985311            333 


Q ss_pred             CCCCcccEEEEec
Q psy7187          81 TILSRFDMIFIIK   93 (214)
Q Consensus        81 ~lldRFDL~~~~~   93 (214)
                      .+.+|||..+.++
T Consensus       160 ~~~~rF~~~i~~P  172 (246)
T d1d2na_         160 EMLNAFSTTIHVP  172 (246)
T ss_dssp             TCTTTSSEEEECC
T ss_pred             hhcCccceEEecC
Confidence            4678999877763

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=84.22  E-value=1.4  Score=26.87  Aligned_cols=63  Identities=16%  Similarity=0.159  Sum_probs=45.4

Q ss_pred             CChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHH
Q psy7187         127 LPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSH  206 (214)
Q Consensus       127 l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~D  206 (214)
                      ++...+++...-+-   -..+|+++.+.|......                    -++.+++-|...|+-..|++|+.+|
T Consensus        10 I~k~~i~Riar~~G---v~ris~d~~~~l~~~l~~--------------------~l~~i~~~a~~~~~hakRKTvt~~D   66 (82)
T d2huec1          10 ITKPAIRRLARRGG---VKRISGLIYEETRGVLKV--------------------FLENVIRDAVTYTEHAKRKTVTAMD   66 (82)
T ss_dssp             SCHHHHHHHHHHTT---CCEECTTHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTTCSEECHHH
T ss_pred             cCHHHHHHHHHHcC---cccchHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHhCCCcCCHHH
Confidence            66677776643321   235788887777664432                    1557888889999999999999999


Q ss_pred             HHHHHh
Q psy7187         207 VTEALR  212 (214)
Q Consensus       207 v~~Ai~  212 (214)
                      |..|++
T Consensus        67 V~~Alk   72 (82)
T d2huec1          67 VVYALK   72 (82)
T ss_dssp             HHHHTT
T ss_pred             HHHHHH
Confidence            999874

>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=83.19  E-value=2.5  Score=34.19  Aligned_cols=163  Identities=20%  Similarity=0.243  Sum_probs=90.3

Q ss_pred             cCCceEeeccCCCCC------------HHHHHHHHHhhhcCeEEEEecceEEEEeCceEEEEeecCCCCCCCCCcccccc
Q psy7187           9 ADGGVVCIDEFDKMR------------EDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFGRWDDTKGEQNI   76 (214)
Q Consensus         9 a~~Gv~~iDE~~~~~------------~~~~~~L~e~me~~~i~i~~~g~~~~lpa~~~viaa~Np~~g~~~~~~~~~~~   76 (214)
                      ..+|+.++||+++..            ..++..|+..++..+++. +.|..-+-  ...++++.-+..        ....
T Consensus       248 ~~~~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~-~~~~~~~~--~~l~i~~~~~~~--------~~~~  316 (443)
T d1g41a_         248 EQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST-KHGMVKTD--HILFIASGAFQV--------ARPS  316 (443)
T ss_dssp             HHHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEE-TTEEEECT--TCEEEEEECCSS--------CCGG
T ss_pred             hccCccccchhhhhhhcccCCCCCcccchhhhhhhhhcccccccc-cccccccc--chhhccccchhh--------cccc
Confidence            357899999998753            235556777776666554 44443222  233445443321        1233


Q ss_pred             cCCCCCCCcccEEEEecCCCCccccHHHHHHHHHHHHhhcccCCcCCCCCCChHHHHHHHHHhHh-ccCCCCCHHHHHHH
Q psy7187          77 DFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEIDVASDGELPLPVLKKYINYCRM-RCGPRLTHEAGEKL  155 (214)
Q Consensus        77 ~l~~~lldRFDL~~~~~~~~~~~~d~~ia~~il~~~~~~~~~~~~~~~~~l~~~~l~~~i~~ar~-~~~p~ls~ea~~~i  155 (214)
                      .+-+.|..||.+++.+.+-.     +.---+|+.          +.     ...+++.|...-.. .+.-.++++|.+.|
T Consensus       317 gliPEliGRlPi~v~L~~L~-----~~dL~rILt----------EP-----knsLikQy~~lf~~~gv~L~ft~~al~~i  376 (443)
T d1g41a_         317 DLIPELQGRLPIRVELTALS-----AADFERILT----------EP-----HASLTEQYKALMATEGVNIAFTTDAVKKI  376 (443)
T ss_dssp             GSCHHHHTTCCEEEECCCCC-----HHHHHHHHH----------SS-----TTCHHHHHHHHHHTTTCEEEECHHHHHHH
T ss_pred             cchhhhccceEEEEEccCcc-----HHHHHHHHH----------hh-----hhhHHHHHHHHHhhcCcEEEEcHHHHHHH
Confidence            47788999999998875432     121223333          01     12256777644432 23346799999999


Q ss_pred             HHHHHHHhcCCCcCCCCccccccCHHHHHHHH-----HHHHHHhccCCCC-CCcHHHHHHHH
Q psy7187         156 KNRYVLMRNGSKEDGEKKLNIPITVRQLEAIV-----RIAESMAKMQLEP-FAIDSHVTEAL  211 (214)
Q Consensus       156 ~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~li-----rlA~a~A~l~~r~-~V~~~Dv~~Ai  211 (214)
                      .+....+....         -++..|+|.+++     .+.-......... .|+.+.|.+.+
T Consensus       377 A~~A~~~n~~~---------~~~GAR~Lr~i~E~~l~~~~f~~p~~~~~~v~Id~~~v~~~l  429 (443)
T d1g41a_         377 AEAAFRVNEKT---------ENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADAL  429 (443)
T ss_dssp             HHHHHHHHHHS---------CCCGGGHHHHHHHHHHHHHHHHGGGCTTCEEEECHHHHHHHH
T ss_pred             HHHHHHhhhhc---------ccCCchHHHHHHHHHHHHHhccCCCCCCCEEEECHHHHHhhh
Confidence            88776543221         134567775553     2334445544433 44566666554

>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.96  E-value=3.2  Score=24.73  Aligned_cols=61  Identities=20%  Similarity=0.177  Sum_probs=44.7

Q ss_pred             CChHHHHHHHHHhHhccCC--CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcH
Q psy7187         127 LPLPVLKKYINYCRMRCGP--RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAID  204 (214)
Q Consensus       127 l~~~~l~~~i~~ar~~~~p--~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~  204 (214)
                      ++...|..++.   + +.|  .+++++.+.+.+.+-..                    +++.+.-|...||.++++.++.
T Consensus         4 l~K~~L~eLv~---~-idp~~~ld~~vee~ll~iADdF--------------------V~~V~~~ac~lAKhR~s~~le~   59 (74)
T d1h3ob_           4 LTKKKLQDLVR---E-VDPNEQLDEDVEEMLLQIADDF--------------------IESVVTAACQLARHRKSSTLEV   59 (74)
T ss_dssp             SCHHHHHHHHH---H-HCSSCCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCCEECH
T ss_pred             ccHHHHHHHHH---H-hCCCCCCCHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHhCCCCCCcH
Confidence            34444554443   3 344  67899999988876431                    5678888999999999999999


Q ss_pred             HHHHHHH
Q psy7187         205 SHVTEAL  211 (214)
Q Consensus       205 ~Dv~~Ai  211 (214)
                      .|+.-.+
T Consensus        60 kDvql~L   66 (74)
T d1h3ob_          60 KDVQLHL   66 (74)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9997654

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=82.86  E-value=2.9  Score=28.45  Aligned_cols=66  Identities=11%  Similarity=0.036  Sum_probs=51.3

Q ss_pred             CCCCChHHHHHHHHHhHhccCCCCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCc
Q psy7187         124 DGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAI  203 (214)
Q Consensus       124 ~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~  203 (214)
                      ...++...+++++.-+-   ...+++++..++.+.....                    +..|..-|...|.-..|.+|+
T Consensus        77 ~~~fp~a~IkRi~k~~g---~~ris~dA~~~l~~~~E~f--------------------i~~l~~~A~~~a~~~kRkTI~  133 (151)
T d1f1ea_          77 GELFGRATVRRILKRAG---IERASSDAVDLYNKLICRA--------------------TEELGEKAAEYADEDGRKTVQ  133 (151)
T ss_dssp             SCCCCHHHHHHHHHHTT---CCEECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSEEC
T ss_pred             cCccCHHHHHHHHHcCC---cchhhHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhCCCcCC
Confidence            34578888888876432   2368999988887665331                    567889999999999999999


Q ss_pred             HHHHHHHHh
Q psy7187         204 DSHVTEALR  212 (214)
Q Consensus       204 ~~Dv~~Ai~  212 (214)
                      .+|+..|+.
T Consensus       134 ~~DI~~Av~  142 (151)
T d1f1ea_         134 GEDVEKAIT  142 (151)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999986

>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Chrac-14
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=82.11  E-value=2.2  Score=26.25  Aligned_cols=47  Identities=11%  Similarity=0.116  Sum_probs=37.4

Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCcCCCCccccccCHHHHHHHHHHHHHHhccCCCCCCcHHHHHHHHh
Q psy7187         146 RLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQLEAIVRIAESMAKMQLEPFAIDSHVTEALR  212 (214)
Q Consensus       146 ~ls~ea~~~i~~~y~~~r~~~~~~~~~~~~~~~s~R~l~~lirlA~a~A~l~~r~~V~~~Dv~~Ai~  212 (214)
                      .++.++...+.+.....                    +..|..-|..+|.-..|.+|+.+||..|+.
T Consensus        18 ~iskeA~~~i~~aae~F--------------------I~~lt~~A~~~a~~~~rKtI~~~dv~~Al~   64 (89)
T d2bykb1          18 SVSKEARAAIARAASVF--------------------AIFVTSSSTALAHKQNHKTITAKDILQTLT   64 (89)
T ss_dssp             EECHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence            46888888887765431                    456677788899999999999999999975